Citrus Sinensis ID: 009289

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------54
Protein Sequence
MDMLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRRYELYLHLIEVIERGKTLCTRI
Secondary Structure (PSIPRED)
ccccccccccEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEcccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHccccccccEEEEEEccccccEEccEEEEEcccccccccHHHHHHHHHccccccccEEEEEEcccHHHHHHHHHcccHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHccccccEEEEEcccHHHHHHHHHHHHHccccccccccccccccccccccccHHHHccHHHHHHHHHHHccccHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHEEEEEccHHHEEEEHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEEEEEEccccccEcccEEEEEcHHHHHHccHHHHHHHHHHccccccccEEEEEEccHHHHHHEEEEEccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccEHHEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEHEHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHcccccccccccccccccccccccccccccccccccccccccccHHHHHHHccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHccccccEEEEcccHHHHHHHHHHHHHHccccEEEEEccEEEEcccccHcHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHEccccHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEcc
Coil and Loop (DISEMBL)
MDMLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYTLVKtnrldiplkvaiffplpalFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVvdgtwgtikgscTMVRDFADLCYHSYPIFLKeiresphsnelqplrlfhvpgCIIAGllglvvdiPLYTVIAVIKSPYMLFKGWFRLLHDLIsregpfletacipiagltiLLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYlregtilpkpryrqkkvhssselpvggnqvaggkftsasadapamlmpslAHSRSVREAIQEVKMVQIWVNMMRSCETRGrelldadvitpaDLKDWLKAkcvneeaivgfglpCYSFLQTLLYSIkagsgglllpdsveithlnrpnnklldwfFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERmeawdnggllpeDALRAAQIQGISRRYELYLHLIEVIERGKTLCTRI
Flexible Loop (DISEMBL)
MDMLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPRYRQKkvhssselpvggnqVAGGKFTSASADAPAMLMPSLAHSRSVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVlkltepevrYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRRYELYLHLIEViergktlctri
Low Complexity Region (SEG)
MDMLSNLQGWLKIIYVgfafclafflgalkgllVCPvagliliignvgviiglFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILLWPiivigsiviaifssifigLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRRYELYLHLIEVIERGKTLCTRI
Disordered region (IsUnstruct)
*****NLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILP*************************************************EAIQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRRYELYLHLIEVIERGKTLC***
Disordered Region (DISOPRED)
*********WLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLK**************RLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPK**************************************************IQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTE***************LRAAQIQGISRRYELYLHLIEVIERGKTLCTRI
Disordered Region (DISEMBL)
MDMLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPR***********LPVGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRRYELYLHLIEVIERGKTLCTRI
Disordered Region (DISPRO)
*****NLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPRYRQ**************************************SRSVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRRYELYLHLIEVIERGKTLCTRI
Transmembrane Helix (TMHMM)
ooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooHHHHHHHHHHHHHHHHHHHHHHHHHiiiHHHHHHHHHHHHHHHHHHHHHHHHooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooHHHHHHHHHHHHHHHHHHHHHHiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiHHHHHHHHHHHHHHHHoooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDMLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRRYELYLHLIEVIERGKTLCTRI
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	538	2.2.26 [Sep-21-2011]
Q8GUM4	588	Uncharacterized membrane	no	no	0.888	0.812	0.400	1e-104

>sp|Q8GUM4|Y3739_ARATH Uncharacterized membrane protein At3g27390 OS=Arabidopsis thaliana GN=At3g27390 PE=1 SV=2

 Score =  379 bits (973), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/497 (40%), Positives = 293/497 (58%), Gaps = 19/497 (3%)

Query: 25  FLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLP 84
           FLG +KG+++CP+  L++ IGN  VI+ L P H+ WT Y++V   ++   LK+ +   LP
Sbjct: 26  FLGFIKGIVLCPLVCLVVTIGNSAVILSLLPVHIVWTFYSIVSAKQVGPILKIFLCLCLP 85

Query: 85  ALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCT 144
           A   LW  + I GSVL G  YGFF+P  + F+A      Y+  FHC  DGTW T++ S T
Sbjct: 86  AAIILWPIVGILGSVLGGALYGFFSPIFATFDAVGEGKPYQ-FFHCFYDGTWSTMQRSFT 144

Query: 145 MVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAV 204
           +VRDF D+C+HSY   + E+++S    +   +RL  +PG ++  +LG++VD P+ +++A+
Sbjct: 145 VVRDFKDVCFHSYFSLMDELKQSCPDRKYYEIRLLQLPGALVVSVLGILVDPPVISLVAI 204

Query: 205 IKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILLWPIIVIGSIVIAIFSSIFIG 264
            KSPYMLFKGW RL HDLI REGPFLET C+PIAGL ILLWP+ V G+++ ++ SSIF+G
Sbjct: 205 CKSPYMLFKGWHRLFHDLIGREGPFLETMCVPIAGLAILLWPLAVTGAVIGSVISSIFLG 264

Query: 265 LYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPRYRQKKVHSSSELP 324
            Y  VV YQE SF  G+ Y++A V+ +DEY+ D L L EG+  P+P+YR+K    +   P
Sbjct: 265 AYAGVVSYQESSFYYGLCYIVASVSIYDEYSTDILDLPEGSCFPRPKYRRKDEEPT---P 321

Query: 325 VGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAIQEVKMVQIWVNMMRSCETRGRELL 384
             G     G   +AS+              SVR  + ++K + +   +   C   G  L 
Sbjct: 322 FSGPVPRLGSVKNASS----------MRGGSVRVPMIDIKPLDLLNELFVECRRYGEVLA 371

Query: 385 DADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSV-EITH 443
              +I   D+++   A+      ++  GLP Y  L  +L S+KA S GLLL D V EIT 
Sbjct: 372 TKGLINSKDIEE---ARSSKGSQVISVGLPAYGLLYEILRSVKANSSGLLLSDGVTEITT 428

Query: 444 LNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPE 503
           +NRP +   DWF NP ++LKEQ+    L+E E  YL ++VL     ER+++ +     P 
Sbjct: 429 MNRPKDVFFDWFLNPFLILKEQMKATNLSEEEEEYLGRLVLLFGDPERLKSSNAISASPP 488

Query: 504 DALRA-AQIQGISRRYE 519
              R  A++   +RR +
Sbjct: 489 LTERKRAELDAFARRMQ 505

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	538
356565614	594	PREDICTED: uncharacterized membrane prot	0.953	0.863	0.736	0.0
358348218	597	Membrane protein, putative [Medicago tru	0.951	0.857	0.699	0.0
358349420	532	Membrane protein, putative [Medicago tru	0.953	0.964	0.700	0.0
255565138	561	conserved hypothetical protein [Ricinus	0.955	0.916	0.725	0.0
224094386	570	predicted protein [Populus trichocarpa]	0.955	0.901	0.692	0.0
225438680	559	PREDICTED: uncharacterized membrane prot	0.951	0.915	0.718	0.0
79497780	569	uncharacterized protein [Arabidopsis tha	0.957	0.905	0.695	0.0
4006873	519	hypothetical protein [Arabidopsis thalia	0.957	0.992	0.695	0.0
52354427	569	hypothetical protein AT4G37030 [Arabidop	0.957	0.905	0.691	0.0
297798176	569	hypothetical protein ARALYDRAFT_912643 [	0.957	0.905	0.697	0.0

>gi|356565614|ref|XP_003551034.1| PREDICTED: uncharacterized membrane protein At3g27390-like [Glycine max]

 Score =  786 bits (2030), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 381/517 (73%), Positives = 439/517 (84%), Gaps = 4/517 (0%)

Query: 1   MDMLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAW 60
           MD  S+++GW+K +YV F F  AFFLGALKG++V P+A LILIIGNVGVI+GLFPAHVAW
Sbjct: 1   MDFPSSMEGWMKALYVVFVFFYAFFLGALKGIVVGPIAALILIIGNVGVILGLFPAHVAW 60

Query: 61  TVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRN 120
           T+YTL+K +  D P+K AI   LPALFGLWLGL +AGSVLVGVGYGFFTPWVS FEAFR 
Sbjct: 61  TLYTLLKIHMFDAPMKAAILIALPALFGLWLGLGVAGSVLVGVGYGFFTPWVSTFEAFRQ 120

Query: 121 DNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFH 180
           DNE KK  HC+VDGTWGTIKGSCT+VRDFAD+CYHSYP +LKE+RESP S+E Q LRL H
Sbjct: 121 DNESKKFSHCIVDGTWGTIKGSCTVVRDFADMCYHSYPSYLKELRESPASDERQRLRLIH 180

Query: 181 VPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGL 240
           VPGC+I G++GLVV+IPL+T IA++KSPY+LFKGWFRLLHDLISREGPFLE  CIPIAGL
Sbjct: 181 VPGCVIVGIMGLVVEIPLFTAIALVKSPYLLFKGWFRLLHDLISREGPFLEIVCIPIAGL 240

Query: 241 TILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLY 300
           TI +WP++VI SI++AIFSSIF+GLY SV+VYQERSFRRG+AYVIAMVAEFDEYTNDWLY
Sbjct: 241 TIFVWPLVVIASILLAIFSSIFVGLYASVIVYQERSFRRGIAYVIAMVAEFDEYTNDWLY 300

Query: 301 LREGTILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAI 360
           LREGT LPKP+YR+KK   SSE  V GN V G    + S + PAMLMP LA SRSV+E I
Sbjct: 301 LREGTFLPKPQYRKKKASQSSEFSVRGNSVRG----NTSMEPPAMLMPCLAPSRSVKETI 356

Query: 361 QEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQ 420
           QEVKMVQIW NMMR CE RG+ELLDA+V+T +DL +W+K K  NE AIVG GLPCYS LQ
Sbjct: 357 QEVKMVQIWGNMMRYCEMRGKELLDANVLTASDLYEWMKGKNNNEAAIVGVGLPCYSLLQ 416

Query: 421 TLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLE 480
           TL++SIKA S G+LL D  EIT+LNRP +KLLDWFFNP+MVLKEQI V+KL E E+RYLE
Sbjct: 417 TLVFSIKANSCGVLLLDDFEITYLNRPKDKLLDWFFNPVMVLKEQIRVIKLGEAELRYLE 476

Query: 481 KVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
           KVVLFGS  +RMEAWDNGGL+  DALRAAQI+GISRR
Sbjct: 477 KVVLFGSNKQRMEAWDNGGLMIHDALRAAQIEGISRR 513

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358348218|ref|XP_003638145.1| Membrane protein, putative [Medicago truncatula] gi|358349418|ref|XP_003638734.1| Membrane protein, putative [Medicago truncatula] gi|355504080|gb|AES85283.1| Membrane protein, putative [Medicago truncatula] gi|355504669|gb|AES85872.1| Membrane protein, putative [Medicago truncatula]

 Score =  768 bits (1983), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 359/513 (69%), Positives = 427/513 (83%), Gaps = 1/513 (0%)

Query: 5   SNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYT 64
           ++L+ W+K+ YV FAF  A FLGA+KG +V P+A LILIIGNVGVI+GLFPAHVAWTVYT
Sbjct: 6   NSLEDWIKVSYVVFAFFSALFLGAIKGFIVGPIAALILIIGNVGVILGLFPAHVAWTVYT 65

Query: 65  LVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEY 124
           L+K    D  LKVAI   LPALFG+WLGL IAGSVLVGVGYGFFTPWVS FEAFR DNE 
Sbjct: 66  LLKIEIFDAALKVAILIALPALFGIWLGLGIAGSVLVGVGYGFFTPWVSTFEAFRYDNES 125

Query: 125 KKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGC 184
           KK  HC+VDGT GTIKGSCT+VRDFAD+CYHSYP +LKE+RESP S++ + LRL HVPGC
Sbjct: 126 KKFLHCIVDGTLGTIKGSCTVVRDFADICYHSYPSYLKELRESPCSDQCKTLRLIHVPGC 185

Query: 185 IIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILL 244
           +I G++GL+V++PL+T IA++KSPY+LFKGW+RLLHDLISREGPFLET C+PIAGLTI +
Sbjct: 186 VIVGIVGLIVEVPLFTAIAIVKSPYLLFKGWYRLLHDLISREGPFLETVCVPIAGLTIFV 245

Query: 245 WPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREG 304
           WP++VI SI++A+ SSIF+GLY S++VYQERSF RG+AY++AMVAEFDEYTNDWLYLREG
Sbjct: 246 WPLVVIASILLAVVSSIFVGLYASIIVYQERSFHRGLAYIMAMVAEFDEYTNDWLYLREG 305

Query: 305 TILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAIQEVK 364
           +  PKP+YR+K V  SSE    GN  +  + ++ + + PAM MP+LA SRSVRE IQEVK
Sbjct: 306 SFFPKPQYRKKMVSQSSEFSTRGNNTSESR-SNTTMEPPAMFMPNLAPSRSVRETIQEVK 364

Query: 365 MVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLY 424
           MVQIW NMMR CE RG+ELLDA+V+T ADL +WL+ K VNE +IVG GLPCYS LQTLL+
Sbjct: 365 MVQIWGNMMRDCEIRGKELLDANVLTAADLYEWLRGKNVNEASIVGVGLPCYSLLQTLLF 424

Query: 425 SIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVL 484
           SIKA S G+LL D  EITH NRP +KLLDWFFNP+MVLKEQI V+KL E EVRYLEKVVL
Sbjct: 425 SIKANSSGVLLLDDFEITHFNRPKDKLLDWFFNPVMVLKEQIRVIKLVEGEVRYLEKVVL 484

Query: 485 FGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
           FG   +R++ WDNG LL  D LRAAQI+GISRR
Sbjct: 485 FGVNKQRLKTWDNGSLLIPDGLRAAQIEGISRR 517

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358349420|ref|XP_003638735.1| Membrane protein, putative [Medicago truncatula] gi|355504670|gb|AES85873.1| Membrane protein, putative [Medicago truncatula]

 Score =  768 bits (1982), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 360/514 (70%), Positives = 428/514 (83%), Gaps = 1/514 (0%)

Query: 5   SNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTVYT 64
           ++L+ W+K+ YV FAF  A FLGA+KG +V P+A LILIIGNVGVI+GLFPAHVAWTVYT
Sbjct: 6   NSLEDWIKVSYVVFAFFSALFLGAIKGFIVGPIAALILIIGNVGVILGLFPAHVAWTVYT 65

Query: 65  LVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDNEY 124
           L+K    D  LKVAI   LPALFG+WLGL IAGSVLVGVGYGFFTPWVS FEAFR DNE 
Sbjct: 66  LLKIEIFDAALKVAILIALPALFGIWLGLGIAGSVLVGVGYGFFTPWVSTFEAFRYDNES 125

Query: 125 KKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVPGC 184
           KK  HC+VDGT GTIKGSCT+VRDFAD+CYHSYP +LKE+RESP S++ + LRL HVPGC
Sbjct: 126 KKFLHCIVDGTLGTIKGSCTVVRDFADICYHSYPSYLKELRESPCSDQCKTLRLIHVPGC 185

Query: 185 IIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTILL 244
           +I G++GL+V++PL+T IA++KSPY+LFKGW+RLLHDLISREGPFLET C+PIAGLTI +
Sbjct: 186 VIVGIVGLIVEVPLFTAIAIVKSPYLLFKGWYRLLHDLISREGPFLETVCVPIAGLTIFV 245

Query: 245 WPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREG 304
           WP++VI SI++A+ SSIF+GLY S++VYQERSF RG+AY++AMVAEFDEYTNDWLYLREG
Sbjct: 246 WPLVVIASILLAVVSSIFVGLYASIIVYQERSFHRGLAYIMAMVAEFDEYTNDWLYLREG 305

Query: 305 TILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAIQEVK 364
           +  PKP+YR+K V  SSE    GN  +  + ++ + + PAM MP+LA SRSVRE IQEVK
Sbjct: 306 SFFPKPQYRKKMVSQSSEFSTRGNNTSESR-SNTTMEPPAMFMPNLAPSRSVRETIQEVK 364

Query: 365 MVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLY 424
           MVQIW NMMR CE RG+ELLDA+V+T ADL +WL+ K VNE +IVG GLPCYS LQTLL+
Sbjct: 365 MVQIWGNMMRDCEIRGKELLDANVLTAADLYEWLRGKNVNEASIVGVGLPCYSLLQTLLF 424

Query: 425 SIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVL 484
           SIKA S G+LL D  EITH NRP +KLLDWFFNP+MVLKEQI V+KL E EVRYLEKVVL
Sbjct: 425 SIKANSSGVLLLDDFEITHFNRPKDKLLDWFFNPVMVLKEQIRVIKLVEGEVRYLEKVVL 484

Query: 485 FGSTTERMEAWDNGGLLPEDALRAAQIQGISRRY 518
           FG   +R++ WDNG LL  D LRAAQI+GISRRY
Sbjct: 485 FGVNKQRLKTWDNGSLLIPDGLRAAQIEGISRRY 518

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255565138|ref|XP_002523561.1| conserved hypothetical protein [Ricinus communis] gi|223537123|gb|EEF38756.1| conserved hypothetical protein [Ricinus communis]

 Score =  766 bits (1979), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/517 (72%), Positives = 432/517 (83%), Gaps = 3/517 (0%)

Query: 1   MDMLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAW 60
           M    NL G L+I YV FAF  AF LGALK LLV P+A  ILI GNVGVI+ +FP HVAW
Sbjct: 1   MASSDNLHGCLRIFYVVFAFFSAFILGALKALLVGPIAASILIGGNVGVILVMFPPHVAW 60

Query: 61  TVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRN 120
           TVYTL+KTNR D  LK A+   LP LFG+WL LSIA S LVGVGYGFF PWVS FEAFR+
Sbjct: 61  TVYTLIKTNRFDALLKAALLVVLPVLFGIWLALSIATSALVGVGYGFFAPWVSTFEAFRH 120

Query: 121 DNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFH 180
           ++E KK +HC+VDGTWGTIKGSCT+V DFAD+CYHSYP++LKE+R+SP SNE QPLR  H
Sbjct: 121 NSESKKFYHCIVDGTWGTIKGSCTVVTDFADICYHSYPLYLKELRDSPSSNEHQPLRFIH 180

Query: 181 VPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGL 240
           VPG I+AGL+GL+VDIPL+T IA++KSPYMLFKGW RL+HDLISREGPFLETACIPIAGL
Sbjct: 181 VPGFIMAGLVGLIVDIPLFTAIAIVKSPYMLFKGWLRLIHDLISREGPFLETACIPIAGL 240

Query: 241 TILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLY 300
           TILLWP+IV+GSI++ IFSSIFIGLY SV+VYQERSFR+ +AY IAMVAEFDEYTND LY
Sbjct: 241 TILLWPLIVVGSILVTIFSSIFIGLYASVIVYQERSFRKAIAYAIAMVAEFDEYTNDGLY 300

Query: 301 LREGTILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAI 360
           LREGT LPKPRYR+KK  +SSEL VGGN    GK    +A+  AML+PSLA SRSVREAI
Sbjct: 301 LREGTFLPKPRYRKKKASNSSELSVGGNH---GKLGPVTAEPSAMLVPSLAPSRSVREAI 357

Query: 361 QEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQ 420
           QEV+MVQIW  +MRSCET+GRELLDA  +TPADL D+LKAK  NE AI+G GLPCYS LQ
Sbjct: 358 QEVEMVQIWGAIMRSCETKGRELLDAGALTPADLNDYLKAKNANEGAILGVGLPCYSLLQ 417

Query: 421 TLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLE 480
           TL YSIKAGS G +L D VEIT+LNRPN+KL DWFF P +V+KEQI V+KL E E R+L+
Sbjct: 418 TLFYSIKAGSNGFVLVDGVEITYLNRPNDKLFDWFFQPWLVVKEQIRVIKLEEGEERFLQ 477

Query: 481 KVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
           KVVLFG+ T+R+EAWDNG L+P++ALRAAQIQGISRR
Sbjct: 478 KVVLFGNDTQRIEAWDNGSLVPQEALRAAQIQGISRR 514

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224094386|ref|XP_002310151.1| predicted protein [Populus trichocarpa] gi|222853054|gb|EEE90601.1| predicted protein [Populus trichocarpa]

 Score =  764 bits (1974), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 362/523 (69%), Positives = 437/523 (83%), Gaps = 9/523 (1%)

Query: 1   MDMLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAW 60
           M   +NL GWL+ +YV FAFC AFFLGALKGLLV P+A  +LI+GN  VI+G+ P H++W
Sbjct: 1   MGKSNNLHGWLRFLYVIFAFCSAFFLGALKGLLVGPIAASVLILGNGAVILGMLPPHISW 60

Query: 61  TVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRN 120
           T YTLVKT+R DIPLKVA+   LPALFG+WLGLSIAG+VLVG+GYGFF PW+++FEAFR+
Sbjct: 61  TFYTLVKTDRFDIPLKVALLVALPALFGIWLGLSIAGTVLVGLGYGFFAPWIASFEAFRH 120

Query: 121 DN------EYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQ 174
           D+      E+K L+HCVVDGTWG IKGSCT+V DFAD+C HSYP++LKE+RES  SNE++
Sbjct: 121 DDDDDDDDEFKTLYHCVVDGTWGIIKGSCTVVTDFADICCHSYPLYLKELRESSASNEIR 180

Query: 175 PLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETAC 234
            LRL HVPGCIIAGL+GL+VD+PL+  IA+IKSPYMLFKGW+RLLHDLI REGPFLETAC
Sbjct: 181 TLRLIHVPGCIIAGLVGLIVDVPLFAAIAIIKSPYMLFKGWYRLLHDLIGREGPFLETAC 240

Query: 235 IPIAGLTILLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEY 294
           IPIAGLTILLWP++V+GS+++ IFSSIFIGLY SV++YQERSF R VAYVIAMVAEFDEY
Sbjct: 241 IPIAGLTILLWPLVVVGSVLVTIFSSIFIGLYASVILYQERSFWRAVAYVIAMVAEFDEY 300

Query: 295 TNDWLYLREGTILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASADAPAMLMPSLAHSR 354
           TND LYLREGT LPKP+Y++K    SSEL VGG+     KF+S   +APAML+PS AHS+
Sbjct: 301 TNDRLYLREGTFLPKPKYQKKGTSHSSELSVGGSL---AKFSSVHVEAPAMLVPSFAHSK 357

Query: 355 SVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLP 414
           SVRE +QEVKMVQ+W  MMRSCE RGR+LLD+  IT ADL ++LKA+  NE +++  GLP
Sbjct: 358 SVRETVQEVKMVQVWGVMMRSCEMRGRDLLDSGAITLADLSNYLKARGGNEASVICVGLP 417

Query: 415 CYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEP 474
           CYSFLQ+LL SIKAGS G LL D  EITH NRPN+KL DWFF P+MVLKEQI V+KL E 
Sbjct: 418 CYSFLQSLLNSIKAGSDGFLLSDGTEITHHNRPNDKLFDWFFQPLMVLKEQIRVIKLEEG 477

Query: 475 EVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
           E R+L++VVL+G+ T+RME WDNG L+P++ALRAAQIQGI+RR
Sbjct: 478 EERFLQRVVLYGNDTQRMETWDNGSLVPQEALRAAQIQGITRR 520

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225438680|ref|XP_002277444.1| PREDICTED: uncharacterized membrane protein At3g27390 [Vitis vinifera] gi|296082433|emb|CBI21438.3| unnamed protein product [Vitis vinifera]

 Score =  753 bits (1943), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 370/515 (71%), Positives = 436/515 (84%), Gaps = 3/515 (0%)

Query: 3   MLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTV 62
           M S L+ WLKI+YV FAFC AF LGALKG+LV P+AGLI+IIGNVGVI+GLFP HV WTV
Sbjct: 1   MESTLKDWLKIVYVIFAFCSAFSLGALKGMLVGPIAGLIIIIGNVGVILGLFPFHVTWTV 60

Query: 63  YTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDN 122
           YTLVKTNRLD PLKVA  F LP LF +WL LSIAGSVLVGVGYGFFTPWVSAFEAFR++N
Sbjct: 61  YTLVKTNRLDAPLKVAFLFALPVLFAIWLALSIAGSVLVGVGYGFFTPWVSAFEAFRHEN 120

Query: 123 EYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVP 182
           E  + +HC+VDGTW TI+GSCT+VRD+AD+CYHSYP FLKE RE   S+E+  LRL HVP
Sbjct: 121 E--RFWHCIVDGTWETIRGSCTVVRDYADICYHSYPAFLKERRECSSSDEVHTLRLVHVP 178

Query: 183 GCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTI 242
           GCII G+LGLVV+IPLYT IA++KSPYMLFKGW RL+HDLISREGPFLETACIPIAGLTI
Sbjct: 179 GCIIIGILGLVVEIPLYTAIAIVKSPYMLFKGWHRLIHDLISREGPFLETACIPIAGLTI 238

Query: 243 LLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLR 302
           ++WP+IVIGSI++AIFSS FIGLYG+V+VYQE+SF +GVAYVIAMVAEFDEYTNDWLYLR
Sbjct: 239 IMWPLIVIGSILLAIFSSFFIGLYGAVIVYQEKSFCKGVAYVIAMVAEFDEYTNDWLYLR 298

Query: 303 EGTILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAIQE 362
           EGT+LP+PRYR+K    SSEL VG +  AGG+    S +   ML+PSLA SRSVRE++QE
Sbjct: 299 EGTVLPRPRYRRKG-SRSSELSVGASLRAGGRLNLISVEPRGMLVPSLAPSRSVRESMQE 357

Query: 363 VKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTL 422
           V++ QIW N+MRSCE RG+ELLDA+VI P DL +WL AK  N+ AIVG GLPCYS  Q L
Sbjct: 358 VQVFQIWENVMRSCEMRGKELLDANVIAPDDLYEWLSAKNSNDAAIVGVGLPCYSLFQNL 417

Query: 423 LYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKV 482
           L+SIK+GS GL++ D VE+T+LN P ++L+DWFF PIMVLKEQI V+ L E E+RYLEK 
Sbjct: 418 LFSIKSGSVGLVMLDGVEVTNLNVPQDRLMDWFFQPIMVLKEQIKVIALGEGEIRYLEKF 477

Query: 483 VLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
           ++FG  T+RME+W+NG  +PEDALRAAQIQGI+RR
Sbjct: 478 IIFGGNTQRMESWNNGSFVPEDALRAAQIQGITRR 512

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79497780|ref|NP_195420.2| uncharacterized protein [Arabidopsis thaliana] gi|61742737|gb|AAX55189.1| hypothetical protein At4g37030 [Arabidopsis thaliana] gi|332661339|gb|AEE86739.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  738 bits (1905), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 359/516 (69%), Positives = 420/516 (81%), Gaps = 1/516 (0%)

Query: 3   MLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTV 62
           +++NL   LKI YV FAFC AFFLGA+KGL+V P+AGL LI+GNVGVI+ LFPAHV WT+
Sbjct: 4   VVTNLGSCLKISYVIFAFCSAFFLGAIKGLIVGPIAGLTLIVGNVGVILCLFPAHVTWTI 63

Query: 63  YTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDN 122
           Y + KTNR DIPLKVAI   LPALFG+WLGLS+A SVLVGVGYGFFTPW+SAFEAFR D 
Sbjct: 64  YAVAKTNRFDIPLKVAILVALPALFGIWLGLSLAISVLVGVGYGFFTPWISAFEAFRQDT 123

Query: 123 EYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVP 182
           E  K FHC+VDGTWGTIKGSC +V DFAD CYHSYP++LKE+RESP S+ELQ LRL HVP
Sbjct: 124 ESNKFFHCLVDGTWGTIKGSCIVVTDFADFCYHSYPLYLKELRESPVSDELQTLRLIHVP 183

Query: 183 GCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTI 242
           GCII G+LGLV+DIPL+T IAVIKSPY+L KGW+RL  D I+REGPFLE ACIP+AGLT+
Sbjct: 184 GCIIVGILGLVIDIPLFTAIAVIKSPYLLLKGWYRLAQDAINREGPFLEIACIPVAGLTV 243

Query: 243 LLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLR 302
           LLWPI+VIG I++ IFSSIF+GLYG+VVV+QERSFRRGV+YVIA+V EFDEYTNDWLYLR
Sbjct: 244 LLWPIVVIGFILVTIFSSIFVGLYGAVVVFQERSFRRGVSYVIAVVGEFDEYTNDWLYLR 303

Query: 303 EGTILPKPRYRQKKVHSSSELPVGGNQVAGGKF-TSASADAPAMLMPSLAHSRSVREAIQ 361
           EGTI PKPRYR  +   SSE+ V  +     +  +S S DAPAML+PSL HS SVREAIQ
Sbjct: 304 EGTIFPKPRYRMGRGSFSSEVSVIVHPSDVTRVNSSGSVDAPAMLVPSLVHSVSVREAIQ 363

Query: 362 EVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQT 421
           EV+MVQIW +MM   E +G+ELLDA+V+TP DL + LK +  NE +I+  GLP Y+ L T
Sbjct: 364 EVRMVQIWEHMMGWFEMQGKELLDAEVLTPTDLYESLKGRHGNESSIINVGLPSYALLHT 423

Query: 422 LLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEK 481
           LL SIKAG  G+LL D  E+THLNRP +K LDW FNPIMVLK+QI  LKL E EV+YLEK
Sbjct: 424 LLSSIKAGVHGVLLLDGSEVTHLNRPQDKFLDWVFNPIMVLKDQIRALKLGESEVKYLEK 483

Query: 482 VVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
           VVLFG+  +RMEAWDN    P++ LR AQIQGISRR
Sbjct: 484 VVLFGNHEQRMEAWDNHSNPPQENLRTAQIQGISRR 519

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4006873|emb|CAB16791.1| hypothetical protein [Arabidopsis thaliana] gi|7270652|emb|CAB80369.1| hypothetical protein [Arabidopsis thaliana]

 Score =  737 bits (1902), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 359/516 (69%), Positives = 420/516 (81%), Gaps = 1/516 (0%)

Query: 3   MLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTV 62
           +++NL   LKI YV FAFC AFFLGA+KGL+V P+AGL LI+GNVGVI+ LFPAHV WT+
Sbjct: 4   VVTNLGSCLKISYVIFAFCSAFFLGAIKGLIVGPIAGLTLIVGNVGVILCLFPAHVTWTI 63

Query: 63  YTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDN 122
           Y + KTNR DIPLKVAI   LPALFG+WLGLS+A SVLVGVGYGFFTPW+SAFEAFR D 
Sbjct: 64  YAVAKTNRFDIPLKVAILVALPALFGIWLGLSLAISVLVGVGYGFFTPWISAFEAFRQDT 123

Query: 123 EYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVP 182
           E  K FHC+VDGTWGTIKGSC +V DFAD CYHSYP++LKE+RESP S+ELQ LRL HVP
Sbjct: 124 ESNKFFHCLVDGTWGTIKGSCIVVTDFADFCYHSYPLYLKELRESPVSDELQTLRLIHVP 183

Query: 183 GCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTI 242
           GCII G+LGLV+DIPL+T IAVIKSPY+L KGW+RL  D I+REGPFLE ACIP+AGLT+
Sbjct: 184 GCIIVGILGLVIDIPLFTAIAVIKSPYLLLKGWYRLAQDAINREGPFLEIACIPVAGLTV 243

Query: 243 LLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLR 302
           LLWPI+VIG I++ IFSSIF+GLYG+VVV+QERSFRRGV+YVIA+V EFDEYTNDWLYLR
Sbjct: 244 LLWPIVVIGFILVTIFSSIFVGLYGAVVVFQERSFRRGVSYVIAVVGEFDEYTNDWLYLR 303

Query: 303 EGTILPKPRYRQKKVHSSSELPVGGNQVAGGKF-TSASADAPAMLMPSLAHSRSVREAIQ 361
           EGTI PKPRYR  +   SSE+ V  +     +  +S S DAPAML+PSL HS SVREAIQ
Sbjct: 304 EGTIFPKPRYRMGRGSFSSEVSVIVHPSDVTRVNSSGSVDAPAMLVPSLVHSVSVREAIQ 363

Query: 362 EVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQT 421
           EV+MVQIW +MM   E +G+ELLDA+V+TP DL + LK +  NE +I+  GLP Y+ L T
Sbjct: 364 EVRMVQIWEHMMGWFEMQGKELLDAEVLTPTDLYESLKGRHGNESSIINVGLPSYALLHT 423

Query: 422 LLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEK 481
           LL SIKAG  G+LL D  E+THLNRP +K LDW FNPIMVLK+QI  LKL E EV+YLEK
Sbjct: 424 LLSSIKAGVHGVLLLDGSEVTHLNRPQDKFLDWVFNPIMVLKDQIRALKLGESEVKYLEK 483

Query: 482 VVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
           VVLFG+  +RMEAWDN    P++ LR AQIQGISRR
Sbjct: 484 VVLFGNHEQRMEAWDNHSNPPQENLRTAQIQGISRR 519

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|52354427|gb|AAU44534.1| hypothetical protein AT4G37030 [Arabidopsis thaliana]

 Score =  735 bits (1898), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 357/516 (69%), Positives = 418/516 (81%), Gaps = 1/516 (0%)

Query: 3   MLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTV 62
           +++NL   LKI YV FAFC AFFLGA+KGL+V P+AGL LI+GNVGVI+ LFPAHV WT+
Sbjct: 4   VVTNLGSCLKISYVIFAFCSAFFLGAIKGLIVGPIAGLTLIVGNVGVILCLFPAHVTWTI 63

Query: 63  YTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDN 122
           Y + KTNR DIPLKVAI   LPALFG+WLGLS+A SVLVGVGYGFFTPW+SAFEAFR D 
Sbjct: 64  YAVAKTNRFDIPLKVAILVALPALFGIWLGLSLAISVLVGVGYGFFTPWISAFEAFRQDT 123

Query: 123 EYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVP 182
           E  K FHC+VDGTWGTIKGSC +V DFAD CYHSYP++LKE+RESP S+ELQ LRL HVP
Sbjct: 124 ESNKFFHCLVDGTWGTIKGSCIVVTDFADFCYHSYPLYLKELRESPVSDELQTLRLIHVP 183

Query: 183 GCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTI 242
           GCII G+LGLV+DIPL+T IAVIKSPY+L KGW+RL  D I+REGPFLE ACIP+AGLT+
Sbjct: 184 GCIIVGILGLVIDIPLFTAIAVIKSPYLLLKGWYRLAQDAINREGPFLEIACIPVAGLTV 243

Query: 243 LLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLR 302
           LLWPI+VIG I++ IFSSIF+GLYG+VVV+QERSFRRGV+YVIA+V EFDEYTNDWLYLR
Sbjct: 244 LLWPIVVIGFILVTIFSSIFVGLYGAVVVFQERSFRRGVSYVIAVVGEFDEYTNDWLYLR 303

Query: 303 EGTILPKPRYRQKKVHSSSELPVGGNQVAGGKF-TSASADAPAMLMPSLAHSRSVREAIQ 361
           EGTI PKPRYR  +   SSE+ V  +     +  +S S DAPAML+PSL HS SVREAIQ
Sbjct: 304 EGTIFPKPRYRMGRGSFSSEVSVIVHPSDVTRVNSSGSVDAPAMLVPSLVHSVSVREAIQ 363

Query: 362 EVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQT 421
           EV+MVQIW +MM   E +G+ELLDA+V+TP DL + LK +  NE +I+  GLP Y+ L T
Sbjct: 364 EVRMVQIWEHMMGWFEMQGKELLDAEVLTPTDLYESLKGRHGNESSIINVGLPSYALLHT 423

Query: 422 LLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEK 481
           LL SIKAG  G+LL D  E+THLNRP +K LDW FNPIM LK+QI  LKL E EV+YLEK
Sbjct: 424 LLSSIKAGVHGVLLLDGSEVTHLNRPQDKFLDWVFNPIMALKDQIRALKLGESEVKYLEK 483

Query: 482 VVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
           VV FG+  +RMEAWDN    P++ LR AQIQGISRR
Sbjct: 484 VVFFGNHEQRMEAWDNHSNPPQENLRTAQIQGISRR 519

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297798176|ref|XP_002866972.1| hypothetical protein ARALYDRAFT_912643 [Arabidopsis lyrata subsp. lyrata] gi|297312808|gb|EFH43231.1| hypothetical protein ARALYDRAFT_912643 [Arabidopsis lyrata subsp. lyrata]

 Score =  722 bits (1864), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 360/516 (69%), Positives = 422/516 (81%), Gaps = 1/516 (0%)

Query: 3   MLSNLQGWLKIIYVGFAFCLAFFLGALKGLLVCPVAGLILIIGNVGVIIGLFPAHVAWTV 62
           +++NL   LKI YV FAFC AFFLGALKGL+V P+AGL LI+GNVGVI+GLFPAHV WT+
Sbjct: 4   VVTNLGSCLKITYVIFAFCSAFFLGALKGLIVGPIAGLTLIVGNVGVILGLFPAHVTWTI 63

Query: 63  YTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDN 122
           Y +  TNR DIPLK+AI   LPALFG+WLGLS+A SVLVGVGYGFFTPW+SAFEAFR D 
Sbjct: 64  YAVATTNRFDIPLKLAILVALPALFGIWLGLSLAISVLVGVGYGFFTPWISAFEAFRQDT 123

Query: 123 EYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVP 182
           E  K FHC+VDGTWGTIKGSCT+V DFAD CYHSYP++LKE+RESP  +EL+ LRL HVP
Sbjct: 124 ESNKFFHCLVDGTWGTIKGSCTVVTDFADFCYHSYPLYLKELRESPAPDELETLRLIHVP 183

Query: 183 GCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTI 242
           GCII G++GLV+DIPL+T IAV KSPY+L KGW+RL  D I+REGPFLE ACIP+AGLTI
Sbjct: 184 GCIIVGIIGLVIDIPLFTAIAVFKSPYLLLKGWYRLAQDAINREGPFLEIACIPVAGLTI 243

Query: 243 LLWPIIVIGSIVIAIFSSIFIGLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLR 302
           LLWPIIVIG +++ IFSSIF+GLYG+VVV+QERSFRRGV+YVIA+V EFDEYTNDWLYLR
Sbjct: 244 LLWPIIVIGFVLMTIFSSIFVGLYGAVVVFQERSFRRGVSYVIAVVGEFDEYTNDWLYLR 303

Query: 303 EGTILPKPRYRQKKVHSSSELPVGGNQVAGGKF-TSASADAPAMLMPSLAHSRSVREAIQ 361
           EGTI PKPRYR ++   SSE+ V  +     +  +S SADAPAML+PSL HS SVREAIQ
Sbjct: 304 EGTIFPKPRYRMRRGSFSSEVSVIVHPSDVSRVNSSGSADAPAMLVPSLVHSVSVREAIQ 363

Query: 362 EVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQT 421
           EV+MVQIW +MM   E +GRELLDA V+T ADL + LK +  NE +I+  GLP Y+ L T
Sbjct: 364 EVRMVQIWEHMMGWFEMQGRELLDAGVLTAADLYESLKGRQGNESSIINVGLPSYALLHT 423

Query: 422 LLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEK 481
           LL SIKAG+ G+LL D  E+T+LNRP +K LDWFFNPIMVLK QI  +KL E EVRYL K
Sbjct: 424 LLSSIKAGTHGVLLLDGSEVTNLNRPQDKFLDWFFNPIMVLKYQIRAIKLGESEVRYLGK 483

Query: 482 VVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
           VVLFG+  +RMEAWDN G  P++ LRAAQIQGISRR
Sbjct: 484 VVLFGNHEQRMEAWDNLGNPPQENLRAAQIQGISRR 519

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	538
TAIR|locus:2114960	569	AT4G37030 "AT4G37030" [Arabido	0.957	0.905	0.624	1.5e-168
TAIR|locus:2135748	575	AT4G12680 "AT4G12680" [Arabido	0.840	0.786	0.441	7.4e-98
TAIR|locus:2168803	586	AT5G40640 [Arabidopsis thalian	0.871	0.800	0.379	6.2e-85
TAIR|locus:2086726	588	AT3G27390 "AT3G27390" [Arabido	0.871	0.797	0.368	4.4e-84

TAIR|locus:2114960 AT4G37030 "AT4G37030" [Arabidopsis thaliana (taxid:3702)]

 Score = 1639 (582.0 bits), Expect = 1.5e-168, P = 1.5e-168
 Identities = 322/516 (62%), Positives = 374/516 (72%)

Query:     3 MLSNLQGWLKIIYVXXXXXXXXXXXXXXXXXVCPXXXXXXXXXXXXXXXXXFPAHVAWTV 62
             +++NL   LKI YV                 V P                 FPAHV WT+
Sbjct:     4 VVTNLGSCLKISYVIFAFCSAFFLGAIKGLIVGPIAGLTLIVGNVGVILCLFPAHVTWTI 63

Query:    63 YTLVKTNRLDIPLKVAIFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPWVSAFEAFRNDN 122
             Y + KTNR DIPLKVAI   LPALFG+WLGLS+A SVLVGVGYGFFTPW+SAFEAFR D 
Sbjct:    64 YAVAKTNRFDIPLKVAILVALPALFGIWLGLSLAISVLVGVGYGFFTPWISAFEAFRQDT 123

Query:   123 EYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSNELQPLRLFHVP 182
             E  K FHC+VDGTWGTIKGSC +V DFAD CYHSYP++LKE+RESP S+ELQ LRL HVP
Sbjct:   124 ESNKFFHCLVDGTWGTIKGSCIVVTDFADFCYHSYPLYLKELRESPVSDELQTLRLIHVP 183

Query:   183 GCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPFLETACIPIAGLTI 242
             GCII G+LGLV+DIPL+T IAVIKSPY+L KGW+RL  D I+REGPFLE ACIP+AGLT+
Sbjct:   184 GCIIVGILGLVIDIPLFTAIAVIKSPYLLLKGWYRLAQDAINREGPFLEIACIPVAGLTV 243

Query:   243 LLWPXXXXXXXXXXXXXXXXXXLYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLR 302
             LLWP                  LYG+VVV+QERSFRRGV+YVIA+V EFDEYTNDWLYLR
Sbjct:   244 LLWPIVVIGFILVTIFSSIFVGLYGAVVVFQERSFRRGVSYVIAVVGEFDEYTNDWLYLR 303

Query:   303 EGTILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSA-SADAPAMLMPSLAHSRSVREAIQ 361
             EGTI PKPRYR  +   SSE+ V  +     +  S+ S DAPAML+PSL HS SVREAIQ
Sbjct:   304 EGTIFPKPRYRMGRGSFSSEVSVIVHPSDVTRVNSSGSVDAPAMLVPSLVHSVSVREAIQ 363

Query:   362 EVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQT 421
             EV+MVQIW +MM   E +G+ELLDA+V+TP DL + LK +  NE +I+  GLP Y+ L T
Sbjct:   364 EVRMVQIWEHMMGWFEMQGKELLDAEVLTPTDLYESLKGRHGNESSIINVGLPSYALLHT 423

Query:   422 LLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEK 481
             LL SIKAG  G+LL D  E+THLNRP +K LDW FNPIMVLK+QI  LKL E EV+YLEK
Sbjct:   424 LLSSIKAGVHGVLLLDGSEVTHLNRPQDKFLDWVFNPIMVLKDQIRALKLGESEVKYLEK 483

Query:   482 VVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRR 517
             VVLFG+  +RMEAWDN    P++ LR AQIQGISRR
Sbjct:   484 VVLFGNHEQRMEAWDNHSNPPQENLRTAQIQGISRR 519

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2135748 AT4G12680 "AT4G12680" [Arabidopsis thaliana (taxid:3702)]

 Score = 972 (347.2 bits), Expect = 7.4e-98, P = 7.4e-98
 Identities = 209/473 (44%), Positives = 286/473 (60%)

Query:    54 FPAHVAWTVYTLVKTNRLDIPLKVA--IFFPLPALFGLWLGLSIAGSVLVGVGYGFFTPW 111
             +PAH  WT Y L +T R+ + LK    + FPLP L  LW    I GS+  G+ YGFFTP 
Sbjct:    55 WPAHFIWTYYCLARTKRIGLVLKTLALVLFPLPLL--LWPVAGIVGSLFGGIAYGFFTPL 112

Query:   112 VSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLCYHSYPIFLKEIRESPHSN 171
             ++ FEA   ++   K +HC VDG++ TIKGSCT+V DF D C+HSY  ++ E+RE   S 
Sbjct:   113 MATFEAV-GESVTSKCYHCFVDGSFSTIKGSCTVVTDFTDFCFHSYFSYMDELREMV-SA 170

Query:   172 ELQPL--RLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFKGWFRLLHDLISREGPF 229
             +++PL  +L  +P C++A L+G++VD+ L T +AV KSPYML KGW RLL DL+ REGPF
Sbjct:   171 DVEPLEIKLSRLPSCLLASLIGVMVDVLLITAVAVYKSPYMLLKGWKRLLEDLVGREGPF 230

Query:   230 LETACIPIAGLTILLWPXXXXXXXXXXXXXXXXXXLYGSVVVYQERSFRRGVAYVIAMVA 289
             LE+ C+P AGL ILLWP                  LY  V+V+QE SFR G+ Y+IA V+
Sbjct:   231 LESVCVPFAGLAILLWPLAVAGAVIASVLSSFFLGLYSGVIVHQEDSFRMGLNYIIAAVS 290

Query:   290 EFDEYTNDWLYLREGTILPKPRYRQKKVHSSSELPVGGNQVAG-GKFTSASADAPAMLMP 348
              FDEY ND LYLREGT LP+P YR K     +E  V G ++ G  K     +   + L  
Sbjct:   291 LFDEYVNDLLYLREGTSLPRPCYRTK-----TET-VHGKRILGESKNVDLKSKRSSSLGS 344

Query:   349 SLA--HSRSVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPADLKDWLKAKCVNEE 406
              L    SR++++AI   K VQ+W  + +SCE  GR LL   +I   D+++ L  K  +++
Sbjct:   345 KLVSEQSRTLKKAITLYKPVQVWEWLFKSCEVNGRILLRDGLIDVKDVEECL-VKGNSKK 403

Query:   407 AIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQI 466
               +   LP ++ LQ LL S K+ S GL++ D VE+T LN P +K+  W   P++++KEQI
Sbjct:   404 LYIK--LPAWTVLQCLLASAKSNSSGLVITDGVELTELNSPRDKVFVWLVGPLLIMKEQI 461

Query:   467 SVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQIQGISRRYE 519
               LKLTE E   L K+V+     ER E WDN G    D +R AQ+Q I RR +
Sbjct:   462 KNLKLTEDEEFCLRKLVMV-CKNERTEDWDNTGFPSSDTVRKAQLQAIIRRLQ 513

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=IMP

TAIR|locus:2168803 AT5G40640 [Arabidopsis thaliana (taxid:3702)]

 Score = 850 (304.3 bits), Expect = 6.2e-85, P = 6.2e-85
 Identities = 185/488 (37%), Positives = 264/488 (54%)

Query:    34 VCPXXXXXXXXXXXXXXXXXFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGL 93
             +CP                  P H  WT+Y++    +L   LK+ +   +P    LWL +
Sbjct:    35 LCPLICLTVAIGNSAIILGLLPVHAIWTLYSIASAKQLGPILKIFLCLCVPLGVILWLVV 94

Query:    94 SIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLC 153
             SI GSVL G  YGF +P  + F+A   + +    FHC  DGTW T++GS T+V DF D+C
Sbjct:    95 SILGSVLGGAIYGFLSPIFATFDAV-GEGKSNPFFHCFYDGTWSTVQGSFTVVCDFKDVC 153

Query:   154 YHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFK 213
             +HSY  F+ ++R S  +     +RL  +PG +I  +LG++VD P+ +++A+ KSPYMLFK
Sbjct:   154 FHSYFSFMDDLRTSTANRHYYEIRLLQIPGAVIVAVLGILVDFPVISLLALCKSPYMLFK 213

Query:   214 GWFRLLHDLISREGPFLETACIPIAGLTILLWPXXXXXXXXXXXXXXXXXXLYGSVVVYQ 273
             GW RL HDLI REGPFLET C+PIAGL ILLWP                   YG VV YQ
Sbjct:   214 GWHRLFHDLIGREGPFLETMCVPIAGLVILLWPLAVVGAVLGSVVSSVFLGAYGGVVSYQ 273

Query:   274 ERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPRYRQKKVHSSSELPVGGNQVAGG 333
             E SF  G+ YV+A V+ +DEY+ND L + EG+  P+P YR+ +  +S+    G ++    
Sbjct:   274 ESSFFFGLCYVVASVSIYDEYSNDVLDMPEGSCFPRPIYRRNEEGASTAFSGGLSRPNSF 333

Query:   334 KFTSASADAPAMLMPSLAHSRSVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPAD 393
             K T           PS   S   +  + ++K + +   +   C   G  ++   +I   D
Sbjct:   334 KTT-----------PSRGGSN--KGPMIDLKPLDLLEALFVECRRHGEIMVTKGIINSKD 380

Query:   394 LKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSV-EITHLNRPNNKLL 452
             +++   AK      ++ FGLP YS L  LL SIK+ S GLLL D V EIT  NRP +   
Sbjct:   381 IEE---AKSSKGSQVISFGLPAYSLLHELLRSIKSNSTGLLLGDGVTEITTRNRPKDAFF 437

Query:   453 DWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWD-NGGLLPEDALRAAQI 511
             DWF NP ++LK+QI    L+E E  YL K+VL    +ER+++        P   LR A++
Sbjct:   438 DWFLNPFLILKDQIEAANLSEEEEEYLGKLVLLFGDSERLKSSIVESESPPLTELRKAEL 497

Query:   512 QGISRRYE 519
                +RR +
Sbjct:   498 DAFARRLQ 505

GO:0009507 "chloroplast" evidence=ISM

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2086726 AT3G27390 "AT3G27390" [Arabidopsis thaliana (taxid:3702)]

 Score = 842 (301.5 bits), Expect = 4.4e-84, P = 4.4e-84
 Identities = 180/488 (36%), Positives = 259/488 (53%)

Query:    34 VCPXXXXXXXXXXXXXXXXXFPAHVAWTVYTLVKTNRLDIPLKVAIFFPLPALFGLWLGL 93
             +CP                  P H+ WT Y++V   ++   LK+ +   LPA   LW  +
Sbjct:    35 LCPLVCLVVTIGNSAVILSLLPVHIVWTFYSIVSAKQVGPILKIFLCLCLPAAIILWPIV 94

Query:    94 SIAGSVLVGVGYGFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIKGSCTMVRDFADLC 153
              I GSVL G  YGFF+P  + F+A      Y+  FHC  DGTW T++ S T+VRDF D+C
Sbjct:    95 GILGSVLGGALYGFFSPIFATFDAVGEGKPYQ-FFHCFYDGTWSTMQRSFTVVRDFKDVC 153

Query:   154 YHSYPIFLKEIRESPHSNELQPLRLFHVPGCIIAGLLGLVVDIPLYTVIAVIKSPYMLFK 213
             +HSY   + E+++S    +   +RL  +PG ++  +LG++VD P+ +++A+ KSPYMLFK
Sbjct:   154 FHSYFSLMDELKQSCPDRKYYEIRLLQLPGALVVSVLGILVDPPVISLVAICKSPYMLFK 213

Query:   214 GWFRLLHDLISREGPFLETACIPIAGLTILLWPXXXXXXXXXXXXXXXXXXLYGSVVVYQ 273
             GW RL HDLI REGPFLET C+PIAGL ILLWP                   Y  VV YQ
Sbjct:   214 GWHRLFHDLIGREGPFLETMCVPIAGLAILLWPLAVTGAVIGSVISSIFLGAYAGVVSYQ 273

Query:   274 ERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPRYRQKKVHSSSELPVGGNQVAGG 333
             E SF  G+ Y++A V+ +DEY+ D L L EG+  P+P+YR+K        P  G     G
Sbjct:   274 ESSFYYGLCYIVASVSIYDEYSTDILDLPEGSCFPRPKYRRK---DEEPTPFSGPVPRLG 330

Query:   334 KFTSASADAPAMLMPSLAHSRSVREAIQEVKMVQIWVNMMRSCETRGRELLDADVITPAD 393
                +AS+              SVR  + ++K + +   +   C   G  L    +I   D
Sbjct:   331 SVKNASS----------MRGGSVRVPMIDIKPLDLLNELFVECRRYGEVLATKGLINSKD 380

Query:   394 LKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSV-EITHLNRPNNKLL 452
             +++   A+      ++  GLP Y  L  +L S+KA S GLLL D V EIT +NRP +   
Sbjct:   381 IEE---ARSSKGSQVISVGLPAYGLLYEILRSVKANSSGLLLSDGVTEITTMNRPKDVFF 437

Query:   453 DWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRA-AQI 511
             DWF NP ++LKEQ+    L+E E  YL ++VL     ER+++ +     P    R  A++
Sbjct:   438 DWFLNPFLILKEQMKATNLSEEEEEYLGRLVLLFGDPERLKSSNAISASPPLTERKRAEL 497

Query:   512 QGISRRYE 519
                +RR +
Sbjct:   498 DAFARRMQ 505


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.325   0.141   0.444    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      538       486   0.00081  119 3  11 22  0.48    33
                                                     35  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  627 (67 KB)
  Total size of DFA:  304 KB (2156 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  39.05u 0.15s 39.20t   Elapsed:  00:00:02
  Total cpu time:  39.05u 0.15s 39.20t   Elapsed:  00:00:02
  Start:  Mon May 20 17:59:16 2013   End:  Mon May 20 17:59:18 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005886 "plasma membrane" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	538
cd06944	237	NR_LBD_Ftz-F1_like The ligand binding domain of FT	90.3
smart00430	163	HOLI Ligand binding domain of hormone receptors.	90.21
cd06940	189	NR_LBD_REV_ERB The ligand binding domain of REV-ER	89.35
cd06941	195	NR_LBD_DmE78_like The ligand binding domain of Dro	88.94
cd06930	165	NR_LBD_F2 Ligand-binding domain of nuclear recepto	87.83
cd06943	207	NR_LBD_RXR_like The ligand binding domain of the r	87.39
cd07069	241	NR_LBD_Lrh-1 The ligand binding domain of the live	86.04
cd06945	239	NR_LBD_Nurr1_like The ligand binding domain of Nur	85.59
cd06931	222	NR_LBD_HNF4_like The ligand binding domain of hept	84.46
cd06942	191	NR_LBD_Sex_1_like The ligand binding domain of Cae	82.89
cd06929	174	NR_LBD_F1 Ligand-binding domain of nuclear recepto	82.25
cd07075	248	NR_LBD_MR Ligand binding domain of the mineralocor	82.07
cd06938	231	NR_LBD_EcR The ligand binding domain (LBD) of the	81.54
cd06937	231	NR_LBD_RAR The ligand binding domain (LBD) of reti	80.29

>cd06944 NR_LBD_Ftz-F1_like The ligand binding domain of FTZ-F1 like nuclear receptors

Probab=90.30  E-value=1.8  Score=42.25  Aligned_cols=75  Identities=16%  Similarity=0.247  Sum_probs=55.0

Q ss_pred             HHHHHHHHHhhhcC-CCceeecCCceecccCCCC---ccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          416 YSFLQTLLYSIKAG-SGGLLLPDSVEITHLNRPN---NKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       416 yslL~~LL~SaKan-S~GlllsD~~EiT~~NrPk---dr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      ..+|...-||+..+ ++-+++.||..+...+-+.   ....+ +.+.+.-+=.+++.++++++|=.||+-++|++.|...
T Consensus        83 l~~L~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~l~~L~ld~~E~~lLkaIiL~npd~~g  161 (237)
T cd06944          83 LLVLDHIYRQVHHGKEDSILLVTGQEVDLSTLASQAGLGLSS-LVDRAQELVNKLRELQFDRQEFVCLKFLILFNPDVKG  161 (237)
T ss_pred             HHHHHHHHHhcccCCCCceeecCCCccchhhhhhhccccHHH-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCcCC
Confidence            45667777888887 7778999998876554222   11223 3455666667899999999999999999999988543

The ligand binding domain of FTZ-F1 like nuclear receptors: This nuclear receptor family includes at least three subgroups of receptors that function in embryo development and differentiation, and other processes. FTZ-F1 interacts with the cis-acting DNA motif of ftz gene, which required at several stages of development. Particularly, FTZ-F1 genes are strongly linked to steroid biosynthesis and sex-determination; LRH-1 is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. SF-1 is an essential regulator of endocrine development and function and is considered a master regulator of reproduction; SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). However, the ligand for FTZ-F1 has not

>smart00430 HOLI Ligand binding domain of hormone receptors

Probab=90.21  E-value=1.9  Score=36.89  Aligned_cols=77  Identities=22%  Similarity=0.248  Sum_probs=58.8

Q ss_pred             cchHHHHHHHHHhhhcCCCceeecCCceecccCCC--CccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCc
Q 009289          413 LPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRP--NNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTT  489 (538)
Q Consensus       413 LPAyslL~~LL~SaKanS~GlllsD~~EiT~~NrP--kdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~  489 (538)
                      -+.+.+|...-+|.|.+...++.+||+.+......  .......+...+.-+-+.++.+++|++|=.||+-++++..|.
T Consensus        34 ~~~~~~l~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~E~~~l~ai~l~~~~~  112 (163)
T smart00430       34 WFEWLLLESAYRSAKMKKSLLLLPDGTFIDNDKVDLLRKLFSPFLDRILQELVKPLRELKLDDEEYALLKAILLFNPAG  112 (163)
T ss_pred             HHHHHHHHHHHHHHHhcCCEEEeCCCcccCcchhHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcChhh
Confidence            45678899999999998887777887766543322  134455566666677888999999999999999999998654

>cd06940 NR_LBD_REV_ERB The ligand binding domain of REV-ERB receptors, members of the nuclear receptor superfamily

Probab=89.35  E-value=1.3  Score=41.82  Aligned_cols=82  Identities=16%  Similarity=0.229  Sum_probs=53.5

Q ss_pred             CCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccccccccCCCCCChhHHHHH
Q 009289          430 SGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAA  509 (538)
Q Consensus       430 S~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r~~~wd~~g~pp~d~vrrA  509 (538)
                      ...+.+.||..++...-+...+-+ +.+++.-+=++++.++++++|=.||+-++|++.|....+        ..+.|++.
T Consensus        70 ~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~L~ld~~E~a~LkAivLf~pd~~~L~--------~~~~Ve~l  140 (189)
T cd06940          70 ERSVTFLSGQKYSVDDLHSMGAGD-LLNSMFDFSEKLNSLQLSDEEMGLFTAVVLVSADRSGLE--------NVNLVEAL  140 (189)
T ss_pred             CCeEEecCCcEEcHHHHHHcCcHH-HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCcCCC--------CHHHHHHH
Confidence            344777788766543322222323 345566788999999999999999999999998754333        55667766


Q ss_pred             HHHHHHHHHhhH
Q 009289          510 QIQGISRRYELY  521 (538)
Q Consensus       510 qLqai~RRLqg~  521 (538)
                      | +.+..-||.+
T Consensus       141 q-~~~~~aL~~~  151 (189)
T cd06940         141 Q-ETLIRALRTL  151 (189)
T ss_pred             H-HHHHHHHHHH
Confidence            6 3333344443

The ligand binding domain (LBD) of REV-ERB receptors: REV-ERBs are transcriptional regulators belonging to the nuclear receptor superfamily. They regulate a number of physiological functions including the circadian rhythm, lipid metabolism, and cellular differentiation. The LBD domain of REV-ERB is unusual in the nuclear receptor family by lacking the AF-2 region that is responsible for coactivator interaction. REV-ERBs act as constitutive repressors because of their inability to bind coactivators. REV-ERB receptors can bind to two classes of DNA response elements as either a monomer or heterodimer, indicating functional diversity. When bound to the DNA, they recruit corepressors (NcoR/histone deacetylase 3) to the promoter, resulting in repression of the target gene. The porphyrin heme has been demonstrated to function as a ligand for REV-ERB. Like other members of

>cd06941 NR_LBD_DmE78_like The ligand binding domain of Drosophila ecdysone-induced protein 78, a member of the nuclear receptor superfamily

Probab=88.94  E-value=1.2  Score=41.82  Aligned_cols=73  Identities=19%  Similarity=0.302  Sum_probs=52.1

Q ss_pred             HHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCcccc
Q 009289          418 FLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERM  492 (538)
Q Consensus       418 lL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r~  492 (538)
                      +++ +-++...+++++.+.||..++..+-......+ +.+++.-+=++++.++++++|=.||+-++|++.|....
T Consensus        49 ll~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~L~ld~~E~allkAi~Lf~pd~~gl  121 (195)
T cd06941          49 LVR-ISRLINSKSGSITFDDGISISRQQLDIIYDSD-FVKALFEFSDSFNSLGLSDTEVALFCAVVLLSPDRIGL  121 (195)
T ss_pred             HHH-HHHHHcCCCCeEEecCCeEeeHHHHHhccchH-HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHcCCCCCCC
Confidence            444 44677778888999999776654321100112 45677778889999999999999999999999875443

The ligand binding domain (LBD) of Drosophila ecdysone-induced protein 78 (E78) like: Drosophila ecdysone-induced protein 78 (E78) is a transcription factor belonging to the nuclear receptor superfamily. E78 is a product of the ecdysone-inducible gene found in an early late puff locus at position 78C during the onset of Drosophila metamorphosis. Two isoforms of E78, E78A and E78B, are expressed from two nested transcription units. An E78 orthologue from the Platyhelminth Schistosoma mansoni (SmE78) has also been identified. It is the first E78 orthologue known outside of the molting animals--the Ecdysozoa. SmE78 may be involved in transduction of an ecdysone signal in S. mansoni, consistent with its function in Drosophila. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, E78-like receptors ha

>cd06930 NR_LBD_F2 Ligand-binding domain of nuclear receptor family 2

Probab=87.83  E-value=4.7  Score=35.76  Aligned_cols=76  Identities=20%  Similarity=0.141  Sum_probs=56.9

Q ss_pred             chHHHHHHHHHhhhcC-CCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCcc
Q 009289          414 PCYSFLQTLLYSIKAG-SGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTE  490 (538)
Q Consensus       414 PAyslL~~LL~SaKan-S~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~  490 (538)
                      +.+.+|..--+|.+.+ ++.+..++|..+...+-.+....++ .+++.-+=++++.+|+|++|=.+|+-+++++.|..
T Consensus        42 ~~~~~l~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~L~l~~~E~~lLkai~l~~p~~~  118 (165)
T cd06930          42 AELLLLGLAQRSVHFELSELLLPSPLLVILTEREALLGLAEL-VQRLQELLSKLRSLQLDPKEYACLKAIVLFNPDLP  118 (165)
T ss_pred             HHHHHHHHHHHHhccCCCcceeecCCcccchhhhhhhhHHHH-HHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCC
Confidence            4566777777888885 6678888998777665443333343 45666677889999999999999999999987654

Ligand-binding domain (LBD) of nuclear receptor (NR) family 2: This is one of the major subfamily of nuclear receptors, including some well known nuclear receptors such as glucocorticoid receptor (GR), mineralocorticoid receptor (MR), estrogen receptor (ER), progesterone receptor (PR), and androgen receptor (AR), other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).

>cd06943 NR_LBD_RXR_like The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily

Probab=87.39  E-value=4.4  Score=38.14  Aligned_cols=76  Identities=17%  Similarity=0.189  Sum_probs=50.3

Q ss_pred             hHHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          415 CYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       415 AyslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      .+.+|..--+|.. ..+|+++++|..++..+-.+..+-+.+-..+--+-++++.+++|++|=.+|+-+++++.|...
T Consensus        74 e~~~l~~a~~s~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~E~~lLkaI~L~~pd~~~  149 (207)
T cd06943          74 ELLIAAFAHRSIA-VKDGILLATGLHLHRNSAHQAGVGAIFDRILTELVVKMRDLKMDRTELGCLRAIILFNPDVKG  149 (207)
T ss_pred             HHHHHHHHHHccC-CCCeeEecCCceeccchhhhccchHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCC
Confidence            3445554455554 368899999987765443333333332222224667899999999999999999999977543

The ligand binding domain of the retinoid X receptor (RXR) and Ultraspiracle (USP): This family includes two evolutionary related nuclear receptors: retinoid X receptor (RXR) and Ultraspiracle (USP). RXR is a nuclear receptor in mammalian and USP is its counterpart in invertebrates. The native ligand of retinoid X receptor is 9-cis retinoic acid (RA). RXR functions as a DNA binding partner by forming heterodimers with other nuclear receptors including CAR, FXR, LXR, PPAR, PXR, RAR, TR, and VDR. RXRs can play different roles in these heterodimers. It acts either as a structural component of the heterodimer complex, required for DNA binding but not acting as a receptor or as both a structural and a functional component of the heterodimer, allowing 9-cis RA to signal through the corresponding heterodimer. In addition, RXR can also form homodimers, func

>cd07069 NR_LBD_Lrh-1 The ligand binding domain of the liver receptor homolog-1, a member of nuclear receptor superfamily,

Probab=86.04  E-value=4.6  Score=39.91  Aligned_cols=78  Identities=17%  Similarity=0.254  Sum_probs=52.4

Q ss_pred             HHHHHHHHHhhhcCCCc-eeecCCceecccCC-CCccc-hhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCcccc
Q 009289          416 YSFLQTLLYSIKAGSGG-LLLPDSVEITHLNR-PNNKL-LDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERM  492 (538)
Q Consensus       416 yslL~~LL~SaKanS~G-lllsD~~EiT~~Nr-Pkdr~-fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r~  492 (538)
                      +.+|...-+|...++.+ +++.+|+.++.... +.... ++=+.+++.-+-++++.++++++|=.||+-++|++.|....
T Consensus        85 llvL~~a~~s~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~lr~L~ld~~E~a~LKaivLfnpd~~gL  164 (241)
T cd07069          85 LLILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELVAKLRSLQFDQREFVCLKFLVLFSLDVKNL  164 (241)
T ss_pred             HHHHHHHHHhhccCCCCeeEecCCCccCchhhhhhhhhHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCCC
Confidence            44555556677665444 77788876654331 11111 22234667778889999999999999999999999876544


Q ss_pred             c
Q 009289          493 E  493 (538)
Q Consensus       493 ~  493 (538)
                      .
T Consensus       165 ~  165 (241)
T cd07069         165 E  165 (241)
T ss_pred             C
Confidence            3

The ligand binding domain (LBD) of the liver receptor homolog-1 (LRH-1): LRH-1 belongs to nuclear hormone receptor superfamily, and is expressed mainly in the liver, intestine, exocrine pancreas, and ovary. Most nuclear receptors function as homodimer or heterodimers. However, LRH-1 binds DNA as a monomer, and is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. Recently, phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, LRH-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).

>cd06945 NR_LBD_Nurr1_like The ligand binding domain of Nurr1 and related nuclear receptor proteins, members of nuclear receptor superfamily

Probab=85.59  E-value=2.7  Score=41.42  Aligned_cols=81  Identities=12%  Similarity=0.192  Sum_probs=54.3

Q ss_pred             HHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccccccccCC
Q 009289          419 LQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNG  498 (538)
Q Consensus       419 L~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r~~~wd~~  498 (538)
                      |..--||... .+.+++.+|.-++..+. +..+-+ +.++++-.=++++.++++++|..||+..+|++.|.....     
T Consensus        89 L~~a~r~~~~-~~~l~~~~~~~~~~~~~-~~~~~~-~~~~i~~f~~~l~~L~ld~~E~~~LkaivL~~pD~~gL~-----  160 (239)
T cd06945          89 LRLAYRSNPV-DGKLVFCNGLVLHRLQC-VRGFGE-WLDSILAFSSSLQSLLLDDISAFCCLALLLLITERHGLK-----  160 (239)
T ss_pred             HHHHHHhcCC-CCceEeeCCceecHHHH-HHhHHH-HHHHHHHHHHHHHHHhCChHHHHHHHHHHHhCCCccccC-----
Confidence            3333445443 34477778877665543 223434 468888777899999999999999999999987654332     


Q ss_pred             CCCChhHHHHHH
Q 009289          499 GLLPEDALRAAQ  510 (538)
Q Consensus       499 g~pp~d~vrrAq  510 (538)
                         ..+.|.+-|
T Consensus       161 ---~~~~Ve~lQ  169 (239)
T cd06945         161 ---EPKKVEELQ  169 (239)
T ss_pred             ---CHHHHHHHH
Confidence               445555554

The ligand binding domain of nuclear receptor Nurr1_like: This family of nuclear receptors, including Nurr1, Nerve growth factor-induced-B (NGFI-B) and DHR38 are involved in the embryo development. Nurr1 is a transcription factor that is expressed in the embryonic ventral midbrain and is critical for the development of dopamine (DA) neurons. Structural studies have shown that the ligand binding pocket of Nurr1 is filled by bulky hydrophobic residues, making it unable to bind to ligands. Therefore, it belongs to the class of orphan receptors. However, Nurr1 forms heterodimers with RXR and can promote signaling via its partner, RXR. NGFI-B is an early immediate gene product of embryo development that is rapidly produced in response to a variety of cellular signals including nerve growth factor. It is involved in T-cell-mediated apoptosis, as well as

>cd06931 NR_LBD_HNF4_like The ligand binding domain of heptocyte nuclear factor 4, which is explosively expanded in nematodes

Probab=84.46  E-value=7.8  Score=36.95  Aligned_cols=76  Identities=18%  Similarity=0.173  Sum_probs=53.2

Q ss_pred             hHHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHH-HHHHHHHhccCChhHHhHHHHhhhcCCCccccc
Q 009289          415 CYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIM-VLKEQISVLKLTEPEVRYLEKVVLFGSTTERME  493 (538)
Q Consensus       415 AyslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~Pll-viKEQIk~~~L~E~EE~yL~KlvL~~~d~~r~~  493 (538)
                      .+.++..--+|. .+.+.+++.||..++..+-+ ..+-+. .++.+ -+-++++.+++|++|=.+|+-+++++.|..+..
T Consensus        76 ~~~~l~~a~~s~-~~~~~l~~~~g~~~~~~~~~-~~~~~~-~~~~~~~~~~~l~~L~l~~~E~~lLkaiil~~p~~~~ls  152 (222)
T cd06931          76 EHLLLGVARRSM-PYKDILLLGNDLIIPRHCPE-PEISRV-ANRILDELVLPLRDLNIDDNEYACLKAIVFFDPDAKGLS  152 (222)
T ss_pred             HHHHHHHHHhcc-CCCCeeeeCCCccccccccc-chHHHH-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCccCCC
Confidence            566666666776 45788999999866655433 222222 33332 466789999999999999999999998766543

The ligand binding domain of hepatocyte nuclear factor 4 (HNF4) like proteins: HNF4 is a member of the nuclear receptor superfamily. HNF4 plays a key role in establishing and maintenance of hepatocyte differentiation in the liver. It is also expressed in gut, kidney, and pancreatic beta cells. HNF4 was originally classified as an orphan receptor, but later it is found that HNF4 binds with very high affinity to a variety of fatty acids. However, unlike other nuclear receptors, the ligands do not act as a molecular switch for HNF4. They seem to constantly bind to the receptor, which is constitutively active as a transcription activator. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, HNF4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal lig

>cd06942 NR_LBD_Sex_1_like The ligand binding domain of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein

Probab=82.89  E-value=5.1  Score=37.67  Aligned_cols=107  Identities=18%  Similarity=0.242  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHhhhhhhhhc-------cCCCChhhHHHHHHhcCCCCcceEeeccchHHHHHHHHHhhhcCCCceeecCCc
Q 009289          367 QIWVNMMRSCETRGRELLD-------ADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSV  439 (538)
Q Consensus       367 qiwd~lfk~ce~~G~~Ll~-------~gvIt~~Diee~~~~k~~~~~k~i~vgLPAyslL~~LL~SaKanS~GlllsD~~  439 (538)
                      ++|.++.+.....-+..++       =.-++.+|=-.-+++.-.          +. .++ .+-++...+  +.++.||.
T Consensus         2 ~~w~~~~~~~~~~i~~~IefaK~iPgF~~L~~~DQi~LLk~~~~----------e~-~ll-~~~~~~~~~--~~~~~~g~   67 (191)
T cd06942           2 NAWGHFAHEFEMHIQEIVQFVKSIPGFNQLSGEDRAQLLKGNMF----------PL-YLL-RLSRDYNNE--GTVLCDFR   67 (191)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHhcCCCcccCChhHHHHHHHHHHH----------HH-HHH-HHHHHhCcC--CeEEeCCc
Confidence            5677776666654444332       122444554333333311          22 223 344665544  88999998


Q ss_pred             eecccCC-CCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCC
Q 009289          440 EITHLNR-PNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGST  488 (538)
Q Consensus       440 EiT~~Nr-Pkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d  488 (538)
                      .++.... .+....+ +.+++.-+=+.++++++|++|=.||+-+++++.|
T Consensus        68 ~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~L~l~~~E~~lL~Aivl~~pd  116 (191)
T cd06942          68 PVEFASLLSQLLHGK-LIDEMLQFANKILTLNLTNAELALLCAAELLQPD  116 (191)
T ss_pred             cccHHHHHHhcchHH-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC
Confidence            8865321 0111223 4566677778999999999999999999999988

The ligand binding domain (LBD) of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein like: Sex-1 protein of C. elegans is a transcription factor belonging to the nuclear receptor superfamily. Sex-1 plays pivotal role in sex fate of C. elegans by regulating the transcription of the sex-determination gene xol-1, which specifies male (XO) fate when active and hermaphrodite (XX) fate when inactive. The Sex-1 protein directly represses xol-1 transcription by binding to its promoter. However, the active ligand for Sex-1 protein has not yet been identified. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Sex-1 like receptors have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).

>cd06929 NR_LBD_F1 Ligand-binding domain of nuclear receptor family 1

Probab=82.25  E-value=6.9  Score=35.27  Aligned_cols=75  Identities=19%  Similarity=0.242  Sum_probs=50.0

Q ss_pred             hHHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          415 CYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       415 AyslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      .+.++..- ++.+.+.+.+..+||+......-+.... .=+.+.+.-.=..++.+++|++|=.+|+-+++++.|...
T Consensus        46 ~l~~l~~a-~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~L~l~~~E~~llkai~l~~pd~~~  120 (174)
T cd06929          46 EILLLRSA-TLYDPEKNSLTFGDGKGNSRDVLLNGGF-GEFIEPLFEFAEKMNKLQLDDNEYALLTAIVLFSPDRPG  120 (174)
T ss_pred             HHHHHHHH-HHhcccCCeEEecCCceecHHHHHHccc-HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCccc
Confidence            34444443 5677788889999997633221111111 123455555668899999999999999999999876543

Ligand-binding domain (LBD) of nuclear receptor (NR) family 1: This is one of the major subfamily of nuclear receptors, including thyroid receptor, retinoid acid receptor, ecdysone receptor, farnesoid X receptor, vitamin D receptor, and other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).

>cd07075 NR_LBD_MR Ligand binding domain of the mineralocorticoid receptor, a member of the nuclear receptor superfamily

Probab=82.07  E-value=6.3  Score=39.68  Aligned_cols=66  Identities=15%  Similarity=0.155  Sum_probs=52.4

Q ss_pred             HHhhhc-CCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCc
Q 009289          423 LYSIKA-GSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTT  489 (538)
Q Consensus       423 L~SaKa-nS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~  489 (538)
                      -||... +++-+++.+|.-++..+-++..+.| +.+++.-+=.+++.++++++|=.||+-++|++.|+
T Consensus        80 ~rs~~~~~~~~l~fa~~~~~~~~~~~~~~~~~-~~~~~~e~~~~l~~L~Ld~~E~acLKAIvLfn~d~  146 (248)
T cd07075          80 WRSYKHTNSQFLYFAPDLVFNEERMHQSAMYE-LCQGMHQISLQFVRLQLTFEEYTIMKVLLLLSTIP  146 (248)
T ss_pred             HhccCCCCCceEEecCCccccHHHHhhccHHH-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC
Confidence            355544 4555888888888777766677888 56777777779999999999999999999999874

The ligand binding domain of the mineralocorticoid receptor (MR): MR, also called aldosterone receptor, is a member of nuclear receptor superfamily involved in the regulation of electrolyte and fluid balance. The receptor is activated by mineralocorticoids such as aldosterone and deoxycorticosterone as well as glucocorticoids, like cortisol and cortisone. Binding of its ligand results in its translocation to the cell nucleus, homodimerization and binding to hormone response elements (HREs) present in the promoter of MR controlled genes. This results in the recruitment of the coactivators and the transcription of the activated genes. MR is expressed in many tissues and its activation results in the expression of proteins regulating electrolyte and fluid balance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, MR h

>cd06938 NR_LBD_EcR The ligand binding domain (LBD) of the Ecdysone receptor, a member of the nuclear receptors super family

Probab=81.54  E-value=9  Score=37.23  Aligned_cols=64  Identities=11%  Similarity=0.174  Sum_probs=49.3

Q ss_pred             HHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcC
Q 009289          422 LLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFG  486 (538)
Q Consensus       422 LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~  486 (538)
                      +-++...+.+.++.+||.+.+..+-....+ .=+.+++.-+-++++.++++++|=.+|+-.++++
T Consensus        89 ~a~~~~~~~~~~~f~~g~~~~~~~~~~~~~-~~~~~~l~~~~~~l~~L~ld~~E~~lL~AI~Lf~  152 (231)
T cd06938          89 VARRYDAKTDSIVFANNQPYTRDSYRKAGM-GDSAEDLFRFCRAMCSMKVDNAEYALLTAIVIFS  152 (231)
T ss_pred             HHHHhCCCCCeEEeeCCEEecHHHHhhcCH-HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcc
Confidence            336677888889999998888765333322 2246677777899999999999999999999985

The ligand binding domain (LBD) of the ecdysone receptor: The ecdysone receptor (EcR) belongs to the superfamily of nuclear receptors (NRs) of ligand-dependent transcription factors. Ecdysone receptor is present only in invertebrates and regulates the expression of a large number of genes during development and reproduction. ECR functions as a heterodimer by partnering with ultraspiracle protein (USP), the ortholog of the vertebrate retinoid X receptor (RXR). The natural ligands of ecdysone receptor are ecdysteroids#the endogenous steroidal hormones found in invertebrates. In addition, insecticide bisacylhydrazine used against pests has shown to act on EcR. EcR must be dimerised with a USP for high-affinity ligand binding to occur. The ligand binding triggers a conformational change in the C-terminal part of the EcR ligand-binding domain that leads to transcript

>cd06937 NR_LBD_RAR The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily

Probab=80.29  E-value=7.1  Score=38.23  Aligned_cols=71  Identities=14%  Similarity=0.279  Sum_probs=50.9

Q ss_pred             CceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccccccccCCCCCChhHHHHHH
Q 009289          431 GGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERMEAWDNGGLLPEDALRAAQ  510 (538)
Q Consensus       431 ~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r~~~wd~~g~pp~d~vrrAq  510 (538)
                      .-+.+++|..++..+-.+.. +.-+.+++.-+=++++.++++++|=.||+-++|++.|.....        ..+.|++.|
T Consensus        97 ~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~L~ld~~E~alLkAivLf~pDr~gL~--------~~~~Ve~lQ  167 (231)
T cd06937          97 DTMTFSDGLTLNRTQMHNAG-FGPLTDLVFTFANQLLPLEMDDTEIGLLSAICLICGDRQDLE--------EPDRVEKLQ  167 (231)
T ss_pred             CeEEecCCceecHHHHhhcC-hHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCccCC--------CHHHHHHHH
Confidence            33667777666554433323 334678888899999999999999999999999998754433        455566665

The ligand binding domain (LBD) of retinoic acid receptor (RAR): Retinoic acid receptors are members of the nuclear receptor (NR) superfamily of ligand-regulated transcription factors. RARs mediate the biological effect of retinoids, including both naturally dietary vitamin A (retinol) metabolites and active synthetic analogs. Retinoids play key roles in a wide variety of essential biological processes, such as vertebrate embryonic morphogenesis and organogenesis, differentiation and apoptosis, and homeostasis. RARs function as heterodimers with retinoic X receptors by binding to specific RAR response elements (RAREs) found in the promoter regions of retinoid target genes. In the absence of ligand, the RAR-RXR heterodimer recruits the corepressor proteins NCoR or AMRT, and associated factors such as histone deacetylases or DNA-methyltransferases, leading to

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	538
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-07

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 51.4 bits (122), Expect = 6e-07
 Identities = 48/322 (14%), Positives = 92/322 (28%), Gaps = 85/322 (26%)

Query: 265 LYGSVVVYQERSFRRGVAYVIAMVAEFDEYTNDWLYLREGTILPKPRYRQKKVHSSSELP 324
           L+ +++  QE   ++        V E       +L     T   +P    +      +  
Sbjct: 67  LFWTLLSKQEEMVQK-------FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119

Query: 325 VGGNQVAGGKFTSASADAPAMLMPSLAHSRSVREAIQEVKMVQ-IWVNMMRSCETRGREL 383
              NQV    F           +  L     +R+A+ E++  + + ++ +      G+  
Sbjct: 120 YNDNQV----F-------AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS---GKTW 165

Query: 384 LDADVITPADLKD-------WLK-AKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLL 435
           +  DV     ++        WL    C + E ++         LQ LLY I         
Sbjct: 166 VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL-------EMLQKLLYQIDPNWTSRSD 218

Query: 436 PDSVEITHLNRPNNKL---------------LD--W------FFN---PIMVLKEQISV- 468
             S     ++    +L               L           FN    I++      V 
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278

Query: 469 --LKLTEPEVRYLEKVVLFGSTTERME---AWDNGGL--LPEDALR---------AAQIQ 512
             L         L+   +  +  E       + +     LP + L          A  I+
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR 338

Query: 513 GISRRYELYLH-----LIEVIE 529
                ++ + H     L  +IE
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIE 360

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	538
2nxx_A	235	Ultraspiracle (USP, NR2B4); hormone receptor, APO	91.92
2iz2_A	243	FTZ-F1 alpha, nuclear hormone receptor FTZ-F1; nuc	91.45
3k6p_A	248	Steroid hormone receptor ERR1; estrogen related re	89.76
3ltx_A	243	Estrogen receptor; constitutive, nuclear receptor,	89.3
1pzl_A	237	Hepatocyte nuclear factor 4-alpha; transcription;	89.13
3oll_A	240	Estrogen receptor beta; steroid binding, phosphory	89.11
2p1t_A	240	Retinoic acid receptor RXR-alpha; protein-ligand c	88.67
1lbd_A	282	RXR_LBD, retinoid X receptor; transcription factor	86.39
2e2r_A	244	Estrogen-related receptor gamma; ERR gamma, BPA, n	86.27
1g2n_A	264	Ultraspiracle protein; antiparallel alpha-helical	85.3
1yye_A	268	ER-beta, estrogen receptor beta; ER-beta, nuclear	84.45
3mnp_A	261	Glucocorticoid receptor; protein-ligand complex, s	83.56
1ymt_A	246	Steroidogenic factor 1; SF-1, ligand-binding domai	82.62
3tx7_B	352	Nuclear receptor subfamily 5 group A member 2; LRH	82.26
1fcy_A	236	RAR-gamma-1, retinoic acid receptor gamma-1; isoty	81.84
3kmr_A	266	Retinoic acid receptor alpha; nuclear receptor tra	80.86

>2nxx_A Ultraspiracle (USP, NR2B4); hormone receptor, APO and holo ligand binding pocket, hormone/growth factor complex; HET: P1A; 2.75A {Tribolium castaneum}

Probab=91.92  E-value=0.84  Score=42.03  Aligned_cols=72  Identities=11%  Similarity=0.201  Sum_probs=53.0

Q ss_pred             HHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCc
Q 009289          417 SFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTT  489 (538)
Q Consensus       417 slL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~  489 (538)
                      .+|..--+|.+. ++++++.||..++...-....+-+++-..+.-+-.+++.++++++|=.||+-++|++.|.
T Consensus        83 ~~L~~a~rs~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~E~~lLkaivL~~pd~  154 (235)
T 2nxx_A           83 LIAAFSHRSMQA-QDAIVLATGLTVNKSTAHAVGVGNIYDRVLSELVNKMKEMKMDKTELGCLRAIILYNPDV  154 (235)
T ss_dssp             HHHHHHHTTSSS-SSSEECSSSCEECSSSCSSSSCSSSHHHHHHHTHHHHHHHTCCHHHHHHHHHHHHCCTTS
T ss_pred             HHHHHHHhcccC-CCceEecCCcccccchhhhhchHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            444444567766 688999999988765543344445544444457789999999999999999999998764

>3k6p_A Steroid hormone receptor ERR1; estrogen related receptor alpha, DNA-binding, isopeptide BON binding, nucleus, phosphoprotein, transcription; HET: 5FB; 2.00A {Homo sapiens} SCOP: a.123.1.1 PDB: 1xb7_A 2pjl_A* 3d24_A

Probab=89.76  E-value=0.84  Score=42.79  Aligned_cols=75  Identities=15%  Similarity=0.146  Sum_probs=54.4

Q ss_pred             hHHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          415 CYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       415 AyslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      ...+|..--+|.+.+ +++++.||..++...-....+.| +++++.-+-.++++++++++|=.||+-++|++.|...
T Consensus        92 el~lL~~a~~s~~~~-~~l~~~~g~~~~~~~~~~~~~~~-~~~~l~~~~~~l~~L~ld~~E~~lLkAivL~npd~~g  166 (248)
T 3k6p_A           92 EVLVLGVAQRSLPLQ-DELAFAEDLVLDEEGARAAGLGE-LGAALLQLVRRLQALRLEREEYVLLKALALANSDSVH  166 (248)
T ss_dssp             HHHHHHHHHHHTTSS-SCEEEETTEEECHHHHHHTTTTT-HHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTCCCTT
T ss_pred             HHHHHHHHHHccCCC-CeEEeCCCcccChhhhhhccHHH-HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCC
Confidence            345566666777777 89999999877642111112334 3577777888999999999999999999999877543

>3ltx_A Estrogen receptor; constitutive, nuclear receptor, DNA-binding, metal-binding, nucleus, transcription, transcription regulation, zinc-finger; 2.60A {Crassostrea gigas}

Probab=89.30  E-value=0.89  Score=42.39  Aligned_cols=75  Identities=19%  Similarity=0.314  Sum_probs=53.5

Q ss_pred             HHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          416 YSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       416 yslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      ..+|..--+|...+.+.++..||..++........+-+ +++++.-+-++++.++++++|=.||+-++|++.|...
T Consensus        81 l~~L~~a~~s~~~~~~~l~~~~g~~~~~~~~~~~~~~~-~~~~i~~~~~~l~~L~ld~~E~~lLkaivL~~pd~~g  155 (243)
T 3ltx_A           81 LLLLNCAFRSIEHGGKSLAFAPDLVLDRSSWSTVEMTE-IFEQVAAVSEQMMQNHLHKDELLLLQAMVLVNAEVRR  155 (243)
T ss_dssp             HHHHHHHHHTTTTTTSEEEEETTEEEEHHHHHHTTCHH-HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCCSC
T ss_pred             HHHHHHHHHhccCCCCeEEecCCcccchhhhcccCHHH-HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCC
Confidence            44555556777777777999999877643211112223 3466667778999999999999999999999987543

>1pzl_A Hepatocyte nuclear factor 4-alpha; transcription; HET: MYR; 2.10A {Homo sapiens} SCOP: a.123.1.1 PDB: 3fs1_A* 1m7w_A* 1lv2_A*

Probab=89.13  E-value=2.6  Score=38.28  Aligned_cols=76  Identities=17%  Similarity=0.180  Sum_probs=55.9

Q ss_pred             chHHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHH-HHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          414 PCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIM-VLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       414 PAyslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~Pll-viKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      ..+.+|..--+|.+ +++.++++||..+.. |.++..-+.-++++++ -+-+.++.+++|++|=.||+-+++++.|...
T Consensus        84 ~~~~~L~~a~~s~~-~~~~~~~~~g~~~~~-~~~~~~~~~~~~~~~~~~l~~~l~~L~ld~~E~~~L~ai~l~~~~~~~  160 (237)
T 1pzl_A           84 GEHLLLGATKRSMV-FKDVLLLGNDYIVPR-HCPELAEMSRVSIRILDELVLPFQELQIDDNEYAYLKAIIFFDPDAKG  160 (237)
T ss_dssp             HHHHHHHHHHHHTT-SSSEEECTTSCEEES-SCGGGGGGHHHHHHHHHHTHHHHHHHTCCHHHHHHHHHHHHCCTTCTT
T ss_pred             HHHHHHHHHHHhhc-cCCceeecCCcccCc-cchhhhhhHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHhCCCCCC
Confidence            35677777778876 678899999988754 3344322233456654 5668999999999999999999999876543

>3oll_A Estrogen receptor beta; steroid binding, phosphorylation, hormone receptor-activator; HET: PTR EST; 1.50A {Homo sapiens} SCOP: a.123.1.1 PDB: 1u3s_A* 1u3q_A* 1x78_A* 1x7b_A* 1x7j_A* 1x76_A* 2yjd_A* 3ols_A* 3omo_A* 3omp_A* 3omq_A* 1u3r_A* 1u9e_A* 1qkm_A* 2giu_A* 1nde_A* 2jj3_A* 2i0g_A* 2qtu_A* 2z4b_A* ...

Probab=89.11  E-value=1.4  Score=40.62  Aligned_cols=72  Identities=17%  Similarity=0.278  Sum_probs=52.2

Q ss_pred             HHHHHHHHhhhcCCCceeecCCceecccCCC-CccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCcc
Q 009289          417 SFLQTLLYSIKAGSGGLLLPDSVEITHLNRP-NNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTE  490 (538)
Q Consensus       417 slL~~LL~SaKanS~GlllsD~~EiT~~NrP-kdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~  490 (538)
                      .+|..--+|.+.+ +.+++.||..++....- ...+-++ ++++.-+-.+++.++++++|=.||+-++|++.|..
T Consensus        79 ~~L~~a~~s~~~~-~~l~~~~g~~~~~~~~~~~~~~~~~-~~~l~~~~~~l~~L~ld~~E~~lLkAivL~~pd~~  151 (240)
T 3oll_A           79 LMMGLMWRSIDHP-GKLIFAPDLVLDRDEGKCVEGILEI-FDMLLATTSRFRELKLQHKEYLCVKAMILLNSSMY  151 (240)
T ss_dssp             HHHHHHHHHTTST-TEEEEETBEEEEGGGGGGSTTHHHH-HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHCSCCC
T ss_pred             HHHHHHHHccCCC-CeeEecCCcccchhhHHHHhhHHHH-HHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCC
Confidence            4444445666644 78999999887654321 2233443 46777788899999999999999999999998754

>2p1t_A Retinoic acid receptor RXR-alpha; protein-ligand complex, hormone receptor; HET: 3TN; 1.80A {Homo sapiens} SCOP: a.123.1.1 PDB: 1mvc_A* 1mzn_A* 1mv9_A* 2p1u_A* 2p1v_A* 2zxz_A* 2zy0_A* 3fug_A* 3nsp_A 3nsq_A* 3r29_A 3r2a_A* 3r5m_A* 3e94_A* 3kwy_A* 1fby_A* 3uvv_B* 3fc6_A* 1rdt_A* 3fal_A* ...

Probab=88.67  E-value=1.3  Score=40.71  Aligned_cols=71  Identities=17%  Similarity=0.253  Sum_probs=48.4

Q ss_pred             HHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCc
Q 009289          418 FLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTT  489 (538)
Q Consensus       418 lL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~  489 (538)
                      ++..--||.+. ++++++.||..++..+-..+.+-+.+-..+.-+-+.++.+++|++|=.||+-+++++.|.
T Consensus        88 il~~a~rs~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~E~~~Lkai~l~~pd~  158 (240)
T 2p1t_A           88 IASFSHRSIAV-KDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMQMDKTELGCLRAIVLFNPDS  158 (240)
T ss_dssp             HHHHHHHTTTS-SSEEECTTSCEEEHHHHHTTTCHHHHHHHHHHTHHHHHHTTCCHHHHHHHHHHHHSCTTC
T ss_pred             HHHHHHhhccC-CCceEecCCcccccchhhhhchHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHhcCCC
Confidence            34433455554 578999999877654322233333433344456678999999999999999999998764

>1lbd_A RXR_LBD, retinoid X receptor; transcription factor, nuclear receptor, structural proteomic europe, spine, structural genomics; 2.70A {Homo sapiens} SCOP: a.123.1.1 PDB: 1z5x_U* 2q60_A

Probab=86.39  E-value=1.6  Score=41.33  Aligned_cols=73  Identities=16%  Similarity=0.242  Sum_probs=49.5

Q ss_pred             HHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCcc
Q 009289          417 SFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTE  490 (538)
Q Consensus       417 slL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~  490 (538)
                      .+|..--+|.+. ++++++.||..++...-....+-+.|-..+.-+-..++.++++++|=.||+-++|++.|..
T Consensus       129 ~il~~a~rs~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~ld~~E~~lLkaivL~~pd~~  201 (282)
T 1lbd_A          129 LIASFSHRSIAV-KDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMQMDKTELGCLRAIVLFNPDSK  201 (282)
T ss_dssp             HHHHHHHGGGGS-SSEEECTTSCEEEHHHHHHTTTHHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHSCTTCT
T ss_pred             HHHHHHHhcccC-CCceEecCCcccccchhhhcccHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHcCCCCC
Confidence            344444466664 5789999998766432212223334434444567889999999999999999999987753

>2e2r_A Estrogen-related receptor gamma; ERR gamma, BPA, nuclear receptor, transcription; HET: 2OH; 1.60A {Homo sapiens} SCOP: a.123.1.1 PDB: 2zas_A* 2zbs_A 2zkc_A* 2p7g_A* 1vjb_A* 1tfc_A 2p7a_A* 2p7z_A* 2gpu_A* 1kv6_A 2gp7_A 2gpp_A* 2gpo_A* 2gpv_A* 1s9q_A* 1s9p_A* 2ewp_A*

Probab=86.27  E-value=1.7  Score=40.49  Aligned_cols=72  Identities=22%  Similarity=0.246  Sum_probs=50.3

Q ss_pred             HHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCcc
Q 009289          417 SFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTE  490 (538)
Q Consensus       417 slL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~  490 (538)
                      .+|..--+|... ++++++.+|..++....-...+.+ +++.+.-+-++++.++++++|=.||+-++|++.|..
T Consensus        94 ~~L~~a~rs~~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~l~~L~ld~~E~~lLkAivL~~pd~~  165 (244)
T 2e2r_A           94 LILGVVYRSLSF-EDELVYADDYIMDEDQSKLAGLLD-LNNAILQLVKKYKSMKLEKEEFVTLKAIALANSDSM  165 (244)
T ss_dssp             HHHHHHHHTTTS-SSCEEEETTEEECHHHHHHTTCHH-HHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHTCCCT
T ss_pred             HHHHHHHHhccc-CCeEEecCCEeecHHHhhhccHHH-HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccCCC
Confidence            344444466665 567889998765432111122333 457788888999999999999999999999987643

>1g2n_A Ultraspiracle protein; antiparallel alpha-helical sandwich, structural proteomics in europe, spine, structural genomics, gene regulation; HET: EPH; 1.65A {Heliothis virescens} SCOP: a.123.1.1 PDB: 2r40_A* 1r20_A* 1r1k_A* 3ixp_A*

Probab=85.30  E-value=1.9  Score=40.51  Aligned_cols=74  Identities=12%  Similarity=0.168  Sum_probs=50.1

Q ss_pred             HHHHHHHHHhhhc---CCCc--------------eeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhH
Q 009289          416 YSFLQTLLYSIKA---GSGG--------------LLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRY  478 (538)
Q Consensus       416 yslL~~LL~SaKa---nS~G--------------lllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~y  478 (538)
                      ..+|..--+|.+.   +.++              +++.||..++...--+..+-+++-+.+.-+-.+++.++++++|=.|
T Consensus        87 l~lL~~a~~s~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~ld~~E~~l  166 (264)
T 1g2n_A           87 LLLFAIAWRSMEFLTEERDGVDGTGNRTTSPPQLMCLMPGMTLHRNSALQAGVGQIFDRVLSELSLKMRTLRVDQAEYVA  166 (264)
T ss_dssp             HHHHHHHHHHGGGSCCC----------CCCCCCEEEEETTEEEEHHHHHHHTCHHHHHHHHHHTHHHHHHTTCCHHHHHH
T ss_pred             HHHHHHHHHccccccccccccccccccccccccceeecCCcccCchhhhhccHHHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            4455555566665   3455              8999998766432111233444446677778899999999999999


Q ss_pred             HHHhhhcCCCc
Q 009289          479 LEKVVLFGSTT  489 (538)
Q Consensus       479 L~KlvL~~~d~  489 (538)
                      |+-++|++.|.
T Consensus       167 LkAivL~npd~  177 (264)
T 1g2n_A          167 LKAIILLNPDV  177 (264)
T ss_dssp             HHHHHHSCTTC
T ss_pred             HHHHHHhCCCC
Confidence            99999998774

>1yye_A ER-beta, estrogen receptor beta; ER-beta, nuclear receptor, transcription factor, agonist; HET: 196; 2.03A {Homo sapiens} SCOP: a.123.1.1 PDB: 1yy4_A*

Probab=84.45  E-value=4.7  Score=38.32  Aligned_cols=74  Identities=16%  Similarity=0.274  Sum_probs=50.9

Q ss_pred             HHHHHHHHHhhhcCCCceeecCCceecccCCC-CccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          416 YSFLQTLLYSIKAGSGGLLLPDSVEITHLNRP-NNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       416 yslL~~LL~SaKanS~GlllsD~~EiT~~NrP-kdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      ..+|..--+|.+.+ +.+++.+|..++...-. ...+-+ +++.+.-+-.+++.++++++|=.||+-++|++.|...
T Consensus        76 l~lL~~a~rs~~~~-~~l~~~~g~~~~~~~~~~~~~~~~-~~~~l~~~~~~l~~L~ld~~E~~lLkAIvLfnpd~~g  150 (268)
T 1yye_A           76 VLMMGLMWRSIDHP-GKLIFAPDLVLDRDEGKCVEGILE-IFDMLLATTSRFRELKLQHKEYLCVKAMILLNSSMYP  150 (268)
T ss_dssp             HHHHHHHHHHTTST-TEEEEETTEEEEGGGGGGSTTHHH-HHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHTCCC--
T ss_pred             HHHHHHHHHhccCC-CceEecCCcccChhhHhhhccHHH-HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCC
Confidence            34444445667654 77888999766543211 122334 3467777788999999999999999999999877544

>3mnp_A Glucocorticoid receptor; protein-ligand complex, steroid nuclear receptor, mouse GR, hormone receptor; HET: DEX; 1.50A {Mus musculus} SCOP: a.123.1.1 PDB: 3mno_A* 3mne_A* 1m2z_A* 3k22_A* 3cld_A* 3k23_A* 3e7c_A* 1nhz_A* 1p93_A* 3bqd_A* 3h52_A* 3gn8_A* 4e2j_A*

Probab=83.56  E-value=2.7  Score=39.88  Aligned_cols=70  Identities=14%  Similarity=0.176  Sum_probs=49.6

Q ss_pred             HHHHHHHHhhhcCCC-ceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCC
Q 009289          417 SFLQTLLYSIKAGSG-GLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGS  487 (538)
Q Consensus       417 slL~~LL~SaKanS~-GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~  487 (538)
                      .+|..--||.+.+.+ -++..||..++...-....+.|+ ++++.-+-..+++++++++|=.||+-+++++.
T Consensus        88 ~iL~~a~rs~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~-~~~l~~~~~~l~~L~ld~~E~~lLkAIvL~np  158 (261)
T 3mnp_A           88 MVFALGWRSYRQASGNLLCFAPDLIINEQRMTLPCMYDQ-CKHMLFISTELQRLQVSYEEYLCMKTLLLLSS  158 (261)
T ss_dssp             HHHHHHHHHHHHHTTSSEEEETTEEECHHHHTSTTTHHH-HHHHHHHHHHHHHHTCCHHHHHHHHHHHHTSE
T ss_pred             HHHHHHHHcccCCCCCEEEecCCcccchhhhhhhhHHHH-HHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCC
Confidence            444444567666544 37788887665432222334553 56777788899999999999999999999987

>1ymt_A Steroidogenic factor 1; SF-1, ligand-binding domain, ligand, phosphatidyl glycerol, CO-repressor peptide, transcription; HET: DR9; 1.20A {Mus musculus} PDB: 3f7d_A* 1yp0_A* 1yow_A* 1zdt_A*

Probab=82.62  E-value=3.6  Score=38.20  Aligned_cols=76  Identities=18%  Similarity=0.198  Sum_probs=52.6

Q ss_pred             HHHHHHHHHhhhc-CCCceeecCCceecccCCC--CccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          416 YSFLQTLLYSIKA-GSGGLLLPDSVEITHLNRP--NNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       416 yslL~~LL~SaKa-nS~GlllsD~~EiT~~NrP--kdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      ..+|..--+|.+. +++.+++.||..++...-.  .+.-++=+.+++.-+-..++.++++++|=.||+-++|++.|...
T Consensus        90 l~~L~~a~rs~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~ld~~E~~lLkAivL~~pd~~g  168 (246)
T 1ymt_A           90 LLVLDHIYRQVQYGKEDSILLVTGQEVELSTVAVQAGSLLHSLVLRAQELVLQLHALQLDRQEFVCLKFLILFSLDVKF  168 (246)
T ss_dssp             HHHHHHHHHHHHHCCTTEEECTTSCEEEHHHHHHHCCHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHTCSCGGG
T ss_pred             HHHHHHHHHHhhcCCCCeeEecCCCccchhhhhhhcchhHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCcccc
Confidence            3455555677776 4778888999888642100  01001114566777788999999999999999999999877543

>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin, armadillo repeat, nuclear receptor LIGA binding domain, protein binding; HET: P6L; 2.76A {Homo sapiens}

Probab=82.26  E-value=2.9  Score=42.07  Aligned_cols=74  Identities=16%  Similarity=0.255  Sum_probs=50.1

Q ss_pred             HHHHHHHhhhcC-CCceeecCCceecccCCC--CccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          418 FLQTLLYSIKAG-SGGLLLPDSVEITHLNRP--NNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       418 lL~~LL~SaKan-S~GlllsD~~EiT~~NrP--kdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      +|..--||.+.+ .+.+++.||.++...+-.  ...-++=+.+.+.-+-+.++.++++++|=.||+-++|++.|...
T Consensus       198 lL~~a~rs~~~~~~~~ll~~~G~~i~~~~~~~~~g~~~~~l~~~l~~l~~~l~~L~ld~~EyalLkAIvLfnpd~~g  274 (352)
T 3tx7_B          198 ILDHIYRQVVHGKEGSIFLVTGQQVDYSIIASQAGATLNNLMSHAQELVAKLRSLQFDQREFVCLKFLVLFSLDVKN  274 (352)
T ss_dssp             HHHHHHHHHHTCCSSCCBCTTCCBCCHHHHHHTSCHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHSCSCC--
T ss_pred             HHHHHHHHHhcCCCCeEEecCCCcccHHHHHHhccccHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC
Confidence            333334677765 477888999877543211  11111334567777889999999999999999999999987544

>1fcy_A RAR-gamma-1, retinoic acid receptor gamma-1; isotype selectivity, retinoid ligand complexes, drug design, antiparallel alpha-helical sandwich fold; HET: 564 LMU; 1.30A {Homo sapiens} SCOP: a.123.1.1 PDB: 1fcz_A* 1fcx_A* 1fd0_A* 1exa_A* 1exx_A* 1dkf_B*

Probab=81.84  E-value=2.8  Score=38.64  Aligned_cols=65  Identities=11%  Similarity=0.172  Sum_probs=45.7

Q ss_pred             HHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCc
Q 009289          423 LYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTT  489 (538)
Q Consensus       423 L~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~  489 (538)
                      -+|.. .++.+++.||..++...-.+..+-+ +.+.+.-+-.+++.++++++|=.||+-++|++.|.
T Consensus        96 ~~~~~-~~~~l~~~~g~~~~~~~~~~~g~~~-~~~~i~~~~~~l~~L~ld~~E~~lLkaivL~~pd~  160 (236)
T 1fcy_A           96 TRYTP-EQDTMTFSDGLTLNRTQMHNAGFGP-LTDLVFAFAGQLLPLEMDDTETGLLSAICLICGDR  160 (236)
T ss_dssp             HTEET-TTTEEECTTCBEEEHHHHHHHTTGG-GHHHHHHHHHHHGGGCCCHHHHHHHHHHHHSCTTS
T ss_pred             HHhcc-CCCeEEeCCCceecHHHHHHcCcHH-HHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCC
Confidence            34443 4578999999877542111111222 45666667789999999999999999999998764

>3kmr_A Retinoic acid receptor alpha; nuclear receptor transcription factor ligand binding domain, binding, metal-binding, nucleus, phosphoprotein; HET: EQN; 1.80A {Homo sapiens} PDB: 3kmz_B* 3a9e_B* 4dm6_A* 1xap_A* 4dm8_A* 2lbd_A* 3lbd_A* 4lbd_A*

Probab=80.86  E-value=3.5  Score=39.20  Aligned_cols=61  Identities=11%  Similarity=0.237  Sum_probs=44.2

Q ss_pred             CCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCcc
Q 009289          429 GSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTE  490 (538)
Q Consensus       429 nS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~  490 (538)
                      +++.+++.||..++...-.+..+ .=+.+.+.-+-.+++.++++++|=.||+-++|++.|..
T Consensus       125 ~~~~l~~~~g~~~~~~~~~~~g~-~~~~~~i~~~~~~l~~L~ld~~E~~lLkAIvL~~pd~~  185 (266)
T 3kmr_A          125 EQDTMTFSDGLTLNRTQMHNAGF-GPLTDLVFAFANQLLPLEMDDAETGLLSAICLICGDRQ  185 (266)
T ss_dssp             TTTEEECTTSBEEEHHHHHHHTT-GGGHHHHHHHHHHHGGGCCCHHHHHHHHHHHHSCTTST
T ss_pred             CCCeEEecCCcccchHHHhhcch-HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC
Confidence            45788999998775432111111 22456666677899999999999999999999987754

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	538
d1pk5a_	242	Orphan nuclear receptor NR5a2 (LRH-1) {Mouse (Mus	88.33
d2p1ta1	230	Retinoid-X receptor alpha (RXR-alpha) {Human (Homo	87.98
d1pzla_	233	Hepatocyte nuclear factor 4-alpha {Human (Homo sap	87.81
d1n46a_	251	Thyroid hormone receptor beta (TR-beta) {Human (Ho	82.92
d3d24a1	227	Steroid hormone receptor ERR1 {Human (Homo sapiens	82.79
d2j7ya1	236	Estrogen receptor beta {Rat (Rattus norvegicus) [T	80.67
d2r40d1	243	Ecdysone receptor {Noctuid moth (Heliothis viresce	80.38

>d1pk5a_ a.123.1.1 (A:) Orphan nuclear receptor NR5a2 (LRH-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: Nuclear receptor ligand-binding domain
superfamily: Nuclear receptor ligand-binding domain
family: Nuclear receptor ligand-binding domain
domain: Orphan nuclear receptor NR5a2 (LRH-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.33  E-value=0.59  Score=41.17  Aligned_cols=97  Identities=15%  Similarity=0.223  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhhcCCCc-eeecCCceecccCCCCc--cchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccccc
Q 009289          417 SFLQTLLYSIKAGSGG-LLLPDSVEITHLNRPNN--KLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTERME  493 (538)
Q Consensus       417 slL~~LL~SaKanS~G-lllsD~~EiT~~NrPkd--r~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r~~  493 (538)
                      .+|..--+|.+.+..| +.+.+|.......-...  .-++=+.+.+.-+=..++.+++|++|=.||+-++|++.|....+
T Consensus        88 ~iL~~a~~s~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~L~ld~~E~~lLkai~Lf~pd~~gL~  167 (242)
T d1pk5a_          88 LILDHIYRQVAHGKEGTIFLVTGEHVDYSTIISHTEVAFNNLLSLAQELVVRLRSLQFDQREFVCLKFLVLFSSDVKNLE  167 (242)
T ss_dssp             HHHHHHHHHHHHCCSSEEECTTSCEEEHHHHHHTSCHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHSCSCCSSCT
T ss_pred             HHHHHHHHHhhcCCCCeeEecCCCcccchHHhhhcccchHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHhcCCCCCCch
Confidence            4455556788887776 66777766543221111  11222234444445668899999999999999999988765543


Q ss_pred             cccCCCCCChhHHHHHHHHHHHHHHhhHH
Q 009289          494 AWDNGGLLPEDALRAAQIQGISRRYELYL  522 (538)
Q Consensus       494 ~wd~~g~pp~d~vrrAqLqai~RRLqg~~  522 (538)
                              ..+.+++.| +.+.+=|+-++
T Consensus       168 --------~~~~v~~~q-~~~~~aL~~y~  187 (242)
T d1pk5a_         168 --------NLQLVEGVQ-EQVNAALLDYT  187 (242)
T ss_dssp             --------THHHHHHHH-HHHHHHHHHHH
T ss_pred             --------hHHHHHHHH-HHHHHHHHHHH
Confidence                    345565555 44445555444

>d2p1ta1 a.123.1.1 (A:229-458) Retinoid-X receptor alpha (RXR-alpha) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Nuclear receptor ligand-binding domain
superfamily: Nuclear receptor ligand-binding domain
family: Nuclear receptor ligand-binding domain
domain: Retinoid-X receptor alpha (RXR-alpha)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.98  E-value=0.72  Score=40.17  Aligned_cols=98  Identities=15%  Similarity=0.184  Sum_probs=65.4

Q ss_pred             hhhhccCCCChhhHHHHHHhcCCCCcceEeeccchHHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHH
Q 009289          381 RELLDADVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIM  460 (538)
Q Consensus       381 ~~Ll~~gvIt~~Diee~~~~k~~~~~k~i~vgLPAyslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~Pll  460 (538)
                      |.+=.=.-++.+|=...+++.           -....+|..--+|... .+++.+.+|..++...-.+....+.+-+.+.
T Consensus        56 k~lp~F~~L~~~DQ~~LLk~~-----------~~el~~L~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (230)
T d2p1ta1          56 KRIPHFSELPLDDQVILLRAG-----------WNELLIASFSHRSIAV-KDGILLATGLHVHRNSAHSAGVGAIFDRVLT  123 (230)
T ss_dssp             HTSTTGGGSCHHHHHHHHHHH-----------HHHHHHHHHHHHTTTS-SSEEECTTSCEEEHHHHHTTTCHHHHHHHHH
T ss_pred             HcCCccccCCHHHHHHHHHHH-----------HHHHHHHHHHHHhhcC-CCeEEecCCeeecHhHHHhccchHHHHHHHH
Confidence            444344456677755544443           1234555555556544 5788999998876655445555555555665


Q ss_pred             HHHHHHHhccCChhHHhHHHHhhhcCCCcc
Q 009289          461 VLKEQISVLKLTEPEVRYLEKVVLFGSTTE  490 (538)
Q Consensus       461 viKEQIk~~~L~E~EE~yL~KlvL~~~d~~  490 (538)
                      -+-++++.+++|++|=.||+-++|++.|..
T Consensus       124 ~~~~~~~~L~ld~~E~~lLkaivL~~pd~~  153 (230)
T d2p1ta1         124 ELVSKMRDMQMDKTELGCLRAIVLFNPDSK  153 (230)
T ss_dssp             HTHHHHHHTTCCHHHHHHHHHHHHSCTTCT
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhccccC
Confidence            566889999999999999999999987653

>d1pzla_ a.123.1.1 (A:) Hepatocyte nuclear factor 4-alpha {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Nuclear receptor ligand-binding domain
superfamily: Nuclear receptor ligand-binding domain
family: Nuclear receptor ligand-binding domain
domain: Hepatocyte nuclear factor 4-alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.81  E-value=1.4  Score=38.42  Aligned_cols=76  Identities=14%  Similarity=0.112  Sum_probs=55.9

Q ss_pred             hHHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          415 CYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       415 AyslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      .+.+|+.--+|.. ...++++.+|.-............+-+...+--+=++++.++++++|=.||+-++|++.|..-
T Consensus        81 el~lL~~a~~s~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~L~ld~~E~~lLkaiiL~~pd~~~  156 (233)
T d1pzla_          81 EHLLLGATKRSMV-FKDVLLLGNDYIVPRHCPELAEMSRVSIRILDELVLPFQELQIDDNEYAYLKAIIFFDPDAKG  156 (233)
T ss_dssp             HHHHHHHHHHHTT-SSSEEECTTSCEEESSCGGGGGGHHHHHHHHHHTHHHHHHHTCCHHHHHHHHHHHHCCTTCTT
T ss_pred             HHHHHHHHHHhhc-cCCceeecCCccccchhhhhhhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhcccccCC
Confidence            3556665556654 567888999987766665556666666666655556799999999999999999999876643

>d1n46a_ a.123.1.1 (A:) Thyroid hormone receptor beta (TR-beta) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Nuclear receptor ligand-binding domain
superfamily: Nuclear receptor ligand-binding domain
family: Nuclear receptor ligand-binding domain
domain: Thyroid hormone receptor beta (TR-beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.92  E-value=1.4  Score=39.51  Aligned_cols=69  Identities=25%  Similarity=0.225  Sum_probs=52.8

Q ss_pred             HHHhhh---cCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          422 LLYSIK---AGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       422 LL~SaK---anS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      +|+.+.   .+.+.+.+++|..++...-....+-+ +.+++.-+-+.++.++|+++|=.+|+-++|++.|...
T Consensus       104 lL~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~f~~~l~~L~ld~~E~alL~AivL~~pdr~g  175 (251)
T d1n46a_         104 SLRAAVRYDPESETLTLNGEMAVTRGQLKNGGLGV-VSDAIFDLGMSLSSFNLDDTEVALLQAVLLMSSDRPG  175 (251)
T ss_dssp             HHHHHHTCBTTTTBEEETTTEEECHHHHHHTTTTT-HHHHHHHHHHHHGGGTCCHHHHHHHHHHHHTCTTSTT
T ss_pred             HHHHHHHhcCCCCeEEeCCCccccHHHHhhcccHH-HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC
Confidence            344444   34567888999888876555555555 4688888889999999999999999999999877543

>d3d24a1 a.123.1.1 (A:194-420) Steroid hormone receptor ERR1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Nuclear receptor ligand-binding domain
superfamily: Nuclear receptor ligand-binding domain
family: Nuclear receptor ligand-binding domain
domain: Steroid hormone receptor ERR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.79  E-value=1.3  Score=38.77  Aligned_cols=94  Identities=15%  Similarity=0.170  Sum_probs=63.2

Q ss_pred             CCCChhhHHHHHHhcCCCCcceEeeccchHHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHH
Q 009289          387 DVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQI  466 (538)
Q Consensus       387 gvIt~~Diee~~~~k~~~~~k~i~vgLPAyslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQI  466 (538)
                      .-++.+|=-.-+++.-.           ...+|..--+|... ++++.+.||..++..+.......+ +.+.+.-+=+++
T Consensus        57 ~~L~~~DQ~~LLk~~~~-----------el~~L~~a~~s~~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~  123 (227)
T d3d24a1          57 SSLSLSDQMSVLQSVWM-----------EVLVLGVAQRSLPL-QDELAFAEDLVLDEEGARAAGLGE-LGAALLQLVRRL  123 (227)
T ss_dssp             TTSCHHHHHHHHHHHHH-----------HHHHHHHHHHHTTS-SSEEEEETTEEEEHHHHHHTTCTT-HHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHH-----------HHHHHHHHHhhccC-CCeeeecCCcccchhhhccccHHH-HHHHHHHHHHHH
Confidence            45778885555554321           23445444455544 467889999777655433333333 456677777889


Q ss_pred             HhccCChhHHhHHHHhhhcCCCccccc
Q 009289          467 SVLKLTEPEVRYLEKVVLFGSTTERME  493 (538)
Q Consensus       467 k~~~L~E~EE~yL~KlvL~~~d~~r~~  493 (538)
                      +.++++++|=.+|+-+++++.|...++
T Consensus       124 ~~L~ld~~E~~lLkaivLf~pd~~gL~  150 (227)
T d3d24a1         124 QALRLEREEYVLLKALALANSDSVHIE  150 (227)
T ss_dssp             HTTTCCHHHHHHHHHHHHHTCCCTTCS
T ss_pred             HHcCCCHHHHHHHHHHHHhCCcCCCcc
Confidence            999999999999999999998765543

>d2j7ya1 a.123.1.1 (A:217-452) Estrogen receptor beta {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: Nuclear receptor ligand-binding domain
superfamily: Nuclear receptor ligand-binding domain
family: Nuclear receptor ligand-binding domain
domain: Estrogen receptor beta
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=80.67  E-value=2.7  Score=36.45  Aligned_cols=75  Identities=15%  Similarity=0.187  Sum_probs=52.4

Q ss_pred             HHHHHHHHHhhhcCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcCCCccc
Q 009289          416 YSFLQTLLYSIKAGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFGSTTER  491 (538)
Q Consensus       416 yslL~~LL~SaKanS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~~d~~r  491 (538)
                      ..+|..--+|... +..++.++|........-...-+.=+.+.+.-+-+.++.+++|++|=.||+-++|++.|...
T Consensus        77 l~~L~~a~~s~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~L~ld~~E~~lLkaIvLf~pd~~~  151 (236)
T d2j7ya1          77 VLMVGLMWRSIDH-PGKLIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHKEYLCVKAMILLNSSMYP  151 (236)
T ss_dssp             HHHHHHHHHHTTS-TTEEEEETTEEEEGGGGGGSTTHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHTTTTCCC
T ss_pred             HHHHHHHHHhhcC-CCcEEecCCcccCHHHHHHHhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCcCCC
Confidence            3444444455543 46788888866655433222234445677777888899999999999999999999887644

>d2r40d1 a.123.1.1 (D:287-529) Ecdysone receptor {Noctuid moth (Heliothis virescens) [TaxId: 7102]}

class: All alpha proteins
fold: Nuclear receptor ligand-binding domain
superfamily: Nuclear receptor ligand-binding domain
family: Nuclear receptor ligand-binding domain
domain: Ecdysone receptor
species: Noctuid moth (Heliothis virescens) [TaxId: 7102]

Probab=80.38  E-value=1.7  Score=38.46  Aligned_cols=58  Identities=12%  Similarity=0.236  Sum_probs=44.8

Q ss_pred             cCCCceeecCCceecccCCCCccchhhhchhHHHHHHHHHhccCChhHHhHHHHhhhcC
Q 009289          428 AGSGGLLLPDSVEITHLNRPNNKLLDWFFNPIMVLKEQISVLKLTEPEVRYLEKVVLFG  486 (538)
Q Consensus       428 anS~GlllsD~~EiT~~NrPkdr~fDWff~PllviKEQIk~~~L~E~EE~yL~KlvL~~  486 (538)
                      ...+++++.||..++..+--+. -+.-+.+++.-+-..++.+++|++|=.+|+-++|++
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~f~~~l~~L~ld~~E~alL~AivL~s  161 (243)
T d2r40d1         104 AATDSVLFANNQAYTRDNYRKA-GMAYVIEDLLHFCRCMYSMMMDNVHYALLTAIVIFS  161 (243)
T ss_dssp             TTTTEEECTTSCEECHHHHHHT-TCHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTS
T ss_pred             ccCCeEEecCCeeecHHHHhhc-ccHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHhcC
Confidence            3457888899877665433222 234578899999999999999999999999999986